This run was generated using rMAP version performed on 2021-09-04… Thank you for using this pipeline!!


Assembly summary statistics


Field Description
SampleID Name of the sample
TrimReads Total number of reads after quality filtering
MeanReadLen Average read length after quality filtering
Contigs Number of contigs of the draft genome (>200bp)
GenomeLength Length (bp) of the draft genome
LargestContig Length (bp) of the largest contig in the genome
N50 Length of the smallest contig in the set that contains the fewest (largest) contigs whose combined length represents at least 50% of the assembly
GC-Content GC content (%) of the draft genome
Depth Number of times each nucleotide position in the draft genome has a read that aligns to that position


SampleID TrimReads MeanReadLen Contigs GenomeLength LargestContig N50 GC-Content Depth
ID014 439599 234 379 5441988 113622 30545 56.93 18X
ID022 319298 241 447 5480234 103223 25709 56.51 14X
ID030III 298203 235 148 4601618 190952 86402 50.74 15X
ID030II 520039 233 109 5275285 347517 129143 50.46 22X
ID030I 326818 222 259 5283048 226676 74409 50.53 13X
ID042 350200 231 93 4978876 280668 139461 50.65 16X
ID049 370324 230 127 4823028 244483 88489 50.77 17X
ID051II 334387 234 621 5356381 85136 17951 56.89 14X
ID064 358332 241 501 5128843 112772 21595 57.16 16X
ID100 352014 240 1119 4940114 47063 7769 56.07 17X

Select the parameter

Number of reads

Average number of reads per sample = 366921

Average read length

Average read length per sample = 234 bp

Number of contigs

Average number of contigs per sample = 380

Genome length

Average genome length per sample = 5130942 bp

Largest contig length

Average largest contig length per sample = 175211 bp

N50

Average N50 per sample = 62147 bp

GC content

Average GC content per sample = 53.671%

Sequencing depth

Average sequencing depth = 16.2X

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SNP-variant calling


Field Description
GenomePosition Position in the genome where SNP is found
Type Nature of the SNP identified (Only ‘True’ SNPs are shown by default)
ReferenceAllele Allele found in the reference genome
AlternateAllele Allele found in the genome of interest forming the SNP
Consequence Amino acid alterations caused by the SNP
AffectedGene The tartget gene affected by the SNP
Product The outcome from the presence of the SNP


Select the sample

ID014
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
338926 snp G A missense_variant c.71G>A p.Gly24Asp NA 6-N-hydroxylaminopurine resistance protein
338973 snp A G missense_variant c.118A>G p.Asn40Asp NA 6-N-hydroxylaminopurine resistance protein
884398 snp C T missense_variant c.1031G>A p.Ser344Asn NA copper resistance protein
884572 snp C T missense_variant c.857G>A p.Ser286Asn NA copper resistance protein
884579 snp G T missense_variant c.850C>A p.Arg284Ser NA copper resistance protein
884590 snp C T missense_variant c.839G>A p.Gly280Asp NA copper resistance protein
884952 snp C A missense_variant c.477G>T p.Glu159Asp NA copper resistance protein
885109 snp G C missense_variant c.320C>G p.Thr107Ser NA copper resistance protein
885118 snp A G missense_variant c.311T>C p.Val104Ala NA copper resistance protein
885326 snp A C missense_variant c.103T>G p.Ser35Ala NA copper resistance protein
885380 snp G C missense_variant c.49C>G p.Leu17Val NA copper resistance protein
2210689 snp G A missense_variant c.391C>T p.His131Tyr NA multidrug resistance protein MdtH
2483142 snp G A missense_variant c.1017G>A p.Met339Ile NA quinolone resistance protein
3117128 snp A G missense_variant c.539T>C p.Val180Ala NA tellurite resistance protein TehB
3117474 snp C G missense_variant c.193G>C p.Val65Leu NA tellurite resistance protein TehB
3160246 snp C T missense_variant c.316C>T p.Leu106Phe NA fusaric acid resistance protein
3777825 snp T C missense_variant c.151A>G p.Thr51Ala NA tellurite resistance protein
3921241 snp T C missense_variant c.937A>G p.Met313Val NA multidrug resistance outer membrane protein MdtQ
3921340 snp C T missense_variant c.838G>A p.Val280Ile NA multidrug resistance outer membrane protein MdtQ
3921525 snp T C missense_variant c.653A>G p.Lys218Arg NA multidrug resistance outer membrane protein MdtQ
3961836 snp A G missense_variant c.379A>G p.Ser127Gly NA phage resistance protein
3962086 snp T C missense_variant c.629T>C p.Val210Ala NA phage resistance protein
3962776 snp G T missense_variant c.1319G>T p.Arg440Leu NA phage resistance protein
3963016 snp G A missense_variant c.1559G>A p.Arg520His NA phage resistance protein
4793590 snp C T missense_variant c.19C>T p.Pro7Ser NA multidrug resistance protein MdtN
4829111 snp T C missense_variant c.37T>C p.Phe13Leu NA copper resistance protein
4829226 snp T C missense_variant c.152T>C p.Val51Ala NA copper resistance protein
4829387 snp C T missense_variant c.313C>T p.Pro105Ser NA copper resistance protein
4829420 snp G A missense_variant c.346G>A p.Val116Ile NA copper resistance protein
5013460 snp C G missense_variant c.568C>G p.Gln190Glu NA acid-resistance membrane protein
ID022
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
338926 snp G A missense_variant c.71G>A p.Gly24Asp NA 6-N-hydroxylaminopurine resistance protein
338973 snp A G missense_variant c.118A>G p.Asn40Asp NA 6-N-hydroxylaminopurine resistance protein
884672 snp C T missense_variant c.757G>A p.Val253Ile NA copper resistance protein
885061 snp T A missense_variant c.368A>T p.Tyr123Phe NA copper resistance protein
885118 snp A G missense_variant c.311T>C p.Val104Ala NA copper resistance protein
1418527 snp T A missense_variant c.331A>T p.Thr111Ser NA oxidative-stress-resistance chaperone
1418734 snp T C missense_variant c.124A>G p.Ser42Gly NA oxidative-stress-resistance chaperone
1508179 snp G A missense_variant c.1034C>T p.Pro345Leu NA Fosmidomycin resistance protein
2245517 snp G C missense_variant c.34G>C p.Val12Leu NA multiple stress resistance protein BhsA
2482911 snp T G missense_variant c.786T>G p.Ile262Met NA quinolone resistance protein
2483071 snp G A missense_variant c.946G>A p.Val316Met NA quinolone resistance protein
3048006 snp C T missense_variant c.1282G>A p.Ala428Thr NA methyl viologen resistance protein SmvA
3117128 snp A G missense_variant c.539T>C p.Val180Ala NA tellurite resistance protein TehB
3160274 snp C G missense_variant c.344C>G p.Thr115Ser NA fusaric acid resistance protein
3225577 snp T G missense_variant c.734A>C p.Glu245Ala NA bicyclomycin resistance protein
3226250 snp C T missense_variant c.61G>A p.Gly21Ser NA bicyclomycin resistance protein
3777825 snp T C missense_variant c.151A>G p.Thr51Ala NA tellurite resistance protein
3921241 snp T C missense_variant c.937A>G p.Met313Val NA multidrug resistance outer membrane protein MdtQ
3962086 snp T C missense_variant c.629T>C p.Val210Ala NA phage resistance protein
4794098 snp A G missense_variant c.527A>G p.Lys176Arg NA multidrug resistance protein MdtN
4794154 snp G A missense_variant c.583G>A p.Val195Ile NA multidrug resistance protein MdtN
4829111 snp T C missense_variant c.37T>C p.Phe13Leu NA copper resistance protein
4829210 snp C A missense_variant c.136C>A p.Gln46Lys NA copper resistance protein
4829226 snp T C missense_variant c.152T>C p.Val51Ala NA copper resistance protein
4829387 snp C T missense_variant c.313C>T p.Pro105Ser NA copper resistance protein
ID030III
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
1508445 snp A T missense_variant c.768T>A p.His256Gln Fosmidomycin resistance protein
4491967 snp C T missense_variant c.260C>T p.Thr87Ile emrB multidrug resistance protein B
4492006 snp A G missense_variant c.299A>G p.Asn100Ser emrB multidrug resistance protein B
ID030II
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
1508445 snp A T missense_variant c.768T>A p.His256Gln Fosmidomycin resistance protein
4491967 snp C T missense_variant c.260C>T p.Thr87Ile emrB multidrug resistance protein B
4492006 snp A G missense_variant c.299A>G p.Asn100Ser emrB multidrug resistance protein B
ID030I
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
1508445 snp A TRUE missense_variant c.768T>A p.His256Gln NA Fosmidomycin resistance protein
ID042
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
1508445 snp A T missense_variant c.768T>A p.His256Gln NA Fosmidomycin resistance protein
1508511 snp C G missense_variant c.702G>C p.Met234Ile NA Fosmidomycin resistance protein
ID049
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
1508445 snp A T missense_variant c.768T>A p.His256Gln Fosmidomycin resistance protein
4491967 snp C T missense_variant c.260C>T p.Thr87Ile emrB multidrug resistance protein B
4492006 snp A G missense_variant c.299A>G p.Asn100Ser emrB multidrug resistance protein B
ID051II
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
146714 snp G A missense_variant c.925G>A p.Asp309Asn acriflavine resistance protein E
146742 snp C A missense_variant c.953C>A p.Ala318Asp acriflavine resistance protein E
146754 snp A C missense_variant c.965A>C p.Glu322Ala acriflavine resistance protein E
188602 snp G A missense_variant c.208G>A p.Val70Ile emrD multidrug resistance protein D
189280 snp A G missense_variant c.886A>G p.Ile296Val emrD multidrug resistance protein D
189473 snp C A missense_variant c.1079C>A p.Thr360Asn emrD multidrug resistance protein D
338901 snp G A missense_variant c.46G>A p.Ala16Thr 6-N-hydroxylaminopurine resistance protein
339068 snp C A missense_variant c.213C>A p.Asp71Glu 6-N-hydroxylaminopurine resistance protein
339086 snp G T missense_variant c.231G>T p.Glu77Asp 6-N-hydroxylaminopurine resistance protein
339237 snp G T missense_variant c.382G>T p.Ala128Ser 6-N-hydroxylaminopurine resistance protein
339359 snp T G missense_variant c.504T>G p.Asp168Glu 6-N-hydroxylaminopurine resistance protein
339395 snp G T missense_variant c.540G>T p.Gln180His 6-N-hydroxylaminopurine resistance protein
442554 snp C T missense_variant c.397G>A p.Val133Met chloramphenical resistance permease RarD
513223 snp G C missense_variant c.407C>G p.Ala136Gly zraP zinc resistance protein
513448 snp G T missense_variant c.182C>A p.Ala61Glu zraP zinc resistance protein
513475 snp A G missense_variant c.155T>C p.Val52Ala zraP zinc resistance protein
513522 snp C G missense_variant c.108G>C p.Met36Ile zraP zinc resistance protein
513528 snp G T missense_variant c.102C>A p.Asn34Lys zraP zinc resistance protein
513563 snp C T missense_variant c.67G>A p.Ala23Thr zraP zinc resistance protein
513571 snp G C missense_variant c.59C>G p.Ala20Gly zraP zinc resistance protein
513588 snp A T missense_variant c.42T>A p.Phe14Leu zraP zinc resistance protein
884590 snp C T missense_variant c.839G>A p.Gly280Asp copper resistance protein
884806 snp A G missense_variant c.623T>C p.Met208Thr copper resistance protein
884975 snp T G missense_variant c.454A>C p.Lys152Gln copper resistance protein
885118 snp A G missense_variant c.311T>C p.Val104Ala copper resistance protein
1418447 snp C A missense_variant c.411G>T p.Glu137Asp oxidative-stress-resistance chaperone
1418602 snp T G missense_variant c.256A>C p.Thr86Pro oxidative-stress-resistance chaperone
1418734 snp T C missense_variant c.124A>G p.Ser42Gly oxidative-stress-resistance chaperone
1508432 snp T A missense_variant c.781A>T p.Thr261Ser Fosmidomycin resistance protein
1508544 snp C A missense_variant c.669G>T p.Lys223Asn Fosmidomycin resistance protein
1509185 snp A C missense_variant c.28T>G p.Leu10Val Fosmidomycin resistance protein
2482166 snp A G missense_variant c.41A>G p.Asn14Ser quinolone resistance protein
2482402 snp G A missense_variant c.277G>A p.Val93Ile quinolone resistance protein
2482835 snp C G missense_variant c.710C>G p.Thr237Ser quinolone resistance protein
2483199 snp A T missense_variant c.1074A>T p.Glu358Asp quinolone resistance protein
2483456 snp T C missense_variant c.1331T>C p.Val444Ala quinolone resistance protein
3032783 snp G A missense_variant c.8G>A p.Ser3Asn glyoxalase/bleomycin resistance protein/dioxygenase
3048036 snp A T missense_variant c.1252T>A p.Ser418Thr methyl viologen resistance protein SmvA
3048391 snp T C missense_variant c.897A>G p.Ile299Met methyl viologen resistance protein SmvA
3048600 snp G T missense_variant c.688C>A p.Leu230Ile methyl viologen resistance protein SmvA
3048690 snp C T missense_variant c.598G>A p.Val200Ile methyl viologen resistance protein SmvA
3048718 snp T G missense_variant c.570A>C p.Glu190Asp methyl viologen resistance protein SmvA
3049041 snp T C missense_variant c.247A>G p.Ile83Val methyl viologen resistance protein SmvA
3117314 snp G C missense_variant c.353C>G p.Ala118Gly tellurite resistance protein TehB
3117474 snp C T missense_variant c.193G>A p.Val65Ile tellurite resistance protein TehB
3117507 snp C T missense_variant c.160G>A p.Ala54Thr tellurite resistance protein TehB
3117636 snp G C missense_variant c.31C>G p.Gln11Glu tellurite resistance protein TehB
3161233 snp G A missense_variant c.1303G>A p.Val435Ile fusaric acid resistance protein
3161362 snp G T missense_variant c.1432G>T p.Ala478Ser fusaric acid resistance protein
3161816 snp A T missense_variant c.1886A>T p.Gln629Leu fusaric acid resistance protein
3191351 snp A G missense_variant c.298A>G p.Ile100Val bleomycin resistance protein
3225577 snp T G missense_variant c.734A>C p.Glu245Ala bicyclomycin resistance protein
3777825 snp T C missense_variant c.151A>G p.Thr51Ala tellurite resistance protein
3921241 snp T C missense_variant c.937A>G p.Met313Val multidrug resistance outer membrane protein MdtQ
3921433 snp T C missense_variant c.745A>G p.Thr249Ala multidrug resistance outer membrane protein MdtQ
3961497 snp T A missense_variant c.40T>A p.Leu14Ile phage resistance protein
3961797 snp A G missense_variant c.340A>G p.Asn114Asp phage resistance protein
3961810 snp G C missense_variant c.353G>C p.Ser118Thr phage resistance protein
3962086 snp T C missense_variant c.629T>C p.Val210Ala phage resistance protein
3962100 snp G A missense_variant c.643G>A p.Ala215Thr phage resistance protein
3962292 snp A G missense_variant c.835A>G p.Ile279Val phage resistance protein
3962466 snp A C missense_variant c.1009A>C p.Ser337Arg phage resistance protein
4441278 snp C G missense_variant c.38C>G p.Thr13Ser acriflavin resistance protein AcrA
4442311 snp T G missense_variant c.1071T>G p.Asn357Lys acriflavin resistance protein AcrA
4442366 snp C G missense_variant c.1126C>G p.Pro376Ala acriflavin resistance protein AcrA
4442396 snp T C missense_variant c.1156T>C p.Ser386Pro acriflavin resistance protein AcrA
4442405 snp A G missense_variant c.1165A>G p.Thr389Ala acriflavin resistance protein AcrA
4794098 snp A G missense_variant c.527A>G p.Lys176Arg multidrug resistance protein MdtN
4794154 snp G A missense_variant c.583G>A p.Val195Ile multidrug resistance protein MdtN
4794454 snp G A missense_variant c.883G>A p.Val295Ile multidrug resistance protein MdtN
4829111 snp T C missense_variant c.37T>C p.Phe13Leu copper resistance protein
4829214 snp A C missense_variant c.140A>C p.Asn47Thr copper resistance protein
5013217 snp A T missense_variant c.325A>T p.Ile109Phe acid-resistance membrane protein
5013274 snp C A missense_variant c.382C>A p.Gln128Lys acid-resistance membrane protein
5013331 snp C A missense_variant c.439C>A p.Leu147Ile acid-resistance membrane protein
5013461 snp A G missense_variant c.569A>G p.Gln190Arg acid-resistance membrane protein
5013741 snp G C missense_variant c.247G>C p.Glu83Gln acid-resistance protein
ID064
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
145850 snp G C missense_variant c.61G>C p.Ala21Pro acriflavine resistance protein E
189011 snp C A missense_variant c.617C>A p.Thr206Asn emrD multidrug resistance protein D
885118 snp A G missense_variant c.311T>C p.Val104Ala copper resistance protein
1418734 snp T C missense_variant c.124A>G p.Ser42Gly oxidative-stress-resistance chaperone
1508447 snp G T missense_variant c.766C>A p.His256Asn Fosmidomycin resistance protein
2482315 snp A T missense_variant c.190A>T p.Ser64Cys quinolone resistance protein
3117128 snp A G missense_variant c.539T>C p.Val180Ala tellurite resistance protein TehB
3225577 snp T G missense_variant c.734A>C p.Glu245Ala bicyclomycin resistance protein
3777825 snp T C missense_variant c.151A>G p.Thr51Ala tellurite resistance protein
3921241 snp T C missense_variant c.937A>G p.Met313Val multidrug resistance outer membrane protein MdtQ
3961586 snp C A missense_variant c.129C>A p.Phe43Leu phage resistance protein
3962086 snp T C missense_variant c.629T>C p.Val210Ala phage resistance protein
4793590 snp C T missense_variant c.19C>T p.Pro7Ser multidrug resistance protein MdtN
4793650 snp A C missense_variant c.79A>C p.Ile27Leu multidrug resistance protein MdtN
4829111 snp T C missense_variant c.37T>C p.Phe13Leu copper resistance protein
4829226 snp T C missense_variant c.152T>C p.Val51Ala copper resistance protein
4829387 snp C T missense_variant c.313C>T p.Pro105Ser copper resistance protein
5013460 snp C G missense_variant c.568C>G p.Gln190Glu acid-resistance membrane protein
ID100
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
338902 snp C T missense_variant c.47C>T p.Ala16Val NA 6-N-hydroxylaminopurine resistance protein
338926 snp G A missense_variant c.71G>A p.Gly24Asp NA 6-N-hydroxylaminopurine resistance protein
338973 snp A G missense_variant c.118A>G p.Asn40Asp NA 6-N-hydroxylaminopurine resistance protein
442551 snp T G missense_variant c.400A>C p.Ile134Leu NA chloramphenical resistance permease RarD
884806 snp A G missense_variant c.623T>C p.Met208Thr NA copper resistance protein
885118 snp A G missense_variant c.311T>C p.Val104Ala NA copper resistance protein
1735636 snp C G missense_variant c.346G>C p.Val116Leu NA camphor resistance protein CrcB
2210939 snp C T missense_variant c.141G>A p.Met47Ile NA multidrug resistance protein MdtH
2483071 snp G A missense_variant c.946G>A p.Val316Met NA quinolone resistance protein
2483506 snp T C missense_variant c.1381T>C p.Ser461Pro NA quinolone resistance protein
3117128 snp A G missense_variant c.539T>C p.Val180Ala NA tellurite resistance protein TehB
3160939 snp G A missense_variant c.1009G>A p.Ala337Thr NA fusaric acid resistance protein
3191246 snp A T missense_variant c.193A>T p.Ser65Cys NA bleomycin resistance protein
3191252 snp G A missense_variant c.199G>A p.Asp67Asn NA bleomycin resistance protein
3225466 snp G C missense_variant c.845C>G p.Ala282Gly NA bicyclomycin resistance protein
3225577 snp T G missense_variant c.734A>C p.Glu245Ala NA bicyclomycin resistance protein
3777825 snp T C missense_variant c.151A>G p.Thr51Ala NA tellurite resistance protein
3921077 snp G C missense_variant c.1101C>G p.Asn367Lys NA multidrug resistance outer membrane protein MdtQ
3921241 snp T C missense_variant c.937A>G p.Met313Val NA multidrug resistance outer membrane protein MdtQ
3961675 snp A C missense_variant c.218A>C p.Asp73Ala NA phage resistance protein
3962086 snp T C missense_variant c.629T>C p.Val210Ala NA phage resistance protein
4441286 snp G T missense_variant c.46G>T p.Gly16Cys NA acriflavin resistance protein AcrA
4793590 snp C T missense_variant c.19C>T p.Pro7Ser NA multidrug resistance protein MdtN
4829111 snp T C missense_variant c.37T>C p.Phe13Leu NA copper resistance protein
4829226 snp T C missense_variant c.152T>C p.Val51Ala NA copper resistance protein
5013422 snp T C missense_variant c.530T>C p.Ile177Thr NA acid-resistance membrane protein


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Phylogenetic inference

Phylogenetic inference based on vcf SNPS

Rectangular (phylogram)

Circular (phylogram)

Circular (cladogram)


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Antimicrobial Resistance Profiling


Field Description
Contig Contig name where the gene was found
Start Start position of the gene within the contig
End End position of the gene within the contig
Gene Antibiotic resistance gene
Gaps Gaps in subject (genome) and query (antibiotic resistance gene)
Coverage Proportion (%) of the gene covered
Identity Proportion (%) of exact nucleotide matches
Accession Accesion number of the antibiotic resistance gene
Product Antibiotic resistance gene product
Resistance Antibiotic that the gene confers resistance to


Select the samples and the database

ID014
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00234 2259 2858 aac(6’)-Ib-cr_1 0/0 100.0 100.0 DQ303918 aac(6’)-Ib-cr Ciprofloxacin
contig00234 78 923 aadA16_1 0/0 100.0 99.6 EU675686 aadA16 Streptomycin
contig00125 7934 8736 aph(3’’)-Ib_2 0/0 99.9 100.0 AF024602 aph(3’’)-Ib Streptomycin
contig00125 7098 7934 aph(6)-Id_1 0/0 100.0 100.0 M28829 aph(6)-Id Streptomycin
contig00234 1710 2202 ARR-3_4 0/0 90.8 99.2 FM207631 ARR-3
contig00197 3145 4020 blaCTX-M-15_1 0/0 100.0 100.0 AY044436 blaCTX-M-15 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00146 9088 9948 blaSHV-133_1 0/0 100.0 99.8 AB551737 blaSHV-133
contig00326 91 732 catA2_1 0/0 100.0 96.1 X53796 catA2 Chloramphenicol
contig00234 1104 1577 dfrA27_1 0/0 100.0 100.0 FJ459817 dfrA27 Trimethoprim
contig00277 2116 2535 fosA_3 0/0 100.0 99.3 ACWO01000079 fosA Fosfomycin
contig00019 42100 43275 oqxA_1 0/0 100.0 99.2 EU370913 oqxA Nalidixic_acid, Ciprofloxacin
contig00019 43299 46451 oqxB_1 0/0 100.0 98.7 EU370913 oqxB Nalidixic_acid, Ciprofloxacin
contig00227 192 836 qnrB6_2 0/0 100.0 100.0 EF523819 qnrB6 Ciprofloxacin
contig00227 4247 5113 sul1_5 0/0 100.0 99.9 EU780013 sul1 Sulfamethoxazole
contig00240 431 1246 sul2_2 0/0 100.0 100.0 AY034138 sul2 Sulfamethoxazole
contig00264 1641 2825 tet(D)_1 0/0 100.0 100.0 AF467077 tet(D) Doxycycline, Tetracycline
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00234 2259 2858 AAC(6’)-Ib-cr 0/0 100.0 100.0 DQ303918:0-600 AAC(6’)-Ib-cr is an aminoglycoside acetyltransferase encoded by plasmids transposons integrons in Enterobacteriaceae. The aac(6’)-Ib-cr variant gene can induce resistance against aminoglycoside and fluoroquinolone simultaneously aminoglycoside, fluoroquinolone
contig00234 78 923 aadA16 0/0 100.0 99.6 EU675686:3196-4042 aadA16 is an aminoglycoside nucleotidyltransferase gene encoded by plasmids and integrons in E. coli V. cholerae and K. pneumoniae aminoglycoside
contig00125 7934 8737 APH(3’’)-Ib 0/0 100.0 99.9 AF313472:15593-16397 APH(3’’)-Ib is an aminoglycoside phosphotransferase encoded by plasmids transposons integrative conjugative elements and chromosomes in Enterobacteriaceae and Pseudomonas spp. aminoglycoside
contig00125 7098 7934 APH(6)-Id 0/0 100.0 99.9 AF024602:3155-3992 APH(6)-Id is an aminoglycoside phosphotransferase encoded by plasmids integrative conjugative elements and chromosomal genomic islands in K. pneumoniae Salmonella spp. E. coli Shigella flexneri Providencia alcalifaciens Pseudomonas spp. V. cholerae Edwardsiella tarda Pasteurella multocida and Aeromonas bestiarum aminoglycoside
contig00234 1710 2162 arr-3 0/0 100.0 100.0 EU675686:1956-2409 arr-3 is a plasmid-encoded ribosyltransferase found in Vibrio fluvialis rifamycin
contig00326 91 732 catII_from_Escherichia_coli_K-12 0/0 100.0 96.1 X53796.1:186-828 catII is a chloramphenicol acetyltransferase. This particular catII is found in E.coli K-12. Confers resistance to chloramphenicol. phenicol
contig00197 3145 4020 CTX-M-15 0/0 100.0 100.0 AY044436:1435-2311 CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00234 1104 1577 dfrA27 0/0 100.0 100.0 KP076293.1:2347-2821 A dihydrofolate reductase and trimethoprim resistance gene from non-O1 non-O139 Vibrio cholerae diaminopyrimidine
contig00277 2116 2535 FosA6 0/0 100.0 99.0 KU254579.1:59421-59841 fosA6 is a plasmid-encoded enzyme that confers resistance to fosfomycin in Escherichia coli by breaking the epoxide ring of the molecule. fosfomycin
contig00133 8234 9427 Klebsiella_pneumoniae_acrA 2/3 99.8 97.7 AJ318073.1:793-1990 AcrA is a subunit of the AcrAB multidrug efflux system that in K. pneumoniae which is encoded by the acrRAB operon. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00108 12138 12500 Klebsiella_pneumoniae_KpnE 0/0 100.0 99.5 AP006725.1:2483889-2484252 KpnE subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline
contig00108 11822 12151 Klebsiella_pneumoniae_KpnF 0/0 100.0 99.7 AP006725.1:2484238-2484568 KpnF subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan. aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline
contig00175 3992 5164 Klebsiella_pneumoniae_KpnG 0/0 100.0 99.4 ACWO01000051.1:22092-23265 KpnG consists of ~390 residues and resembles EmrA of E. coli. Disruption of the pump components KpnG-KpnH signficantly decrease resistance to azithromycin ceftazidime ciprofloxacin ertapenem erythromycin gentamicin imipenem ticarcillin norfloxacin polymyxin-B piperacillin spectinomycin tobramycin and streptomycin aminoglycoside, carbapenem, cephalosporin, fluoroquinolone, macrolide, penam, penem, peptide
contig00063 11484 12608 Klebsiella_pneumoniae_OmpK37 0/0 100.0 99.6 AJ011502.1:300-1425 Klebsiella pneumoniae outer membrane porin protein. Is preferentially detected in porin-deficient strains. Functional characterization of this new porin revealed a narrower pore than those of porins OmpK35 and OmpK36 which did not allow penetration by certain beta-lactams. Also when a resistant strain expresses porin OmpK37 is less susceptible to cefotaxime and cefoxitin than when it is expressing either OmpK36 or OmpK35. carbapenem, cephalosporin, cephamycin, monobactam, penam, penem
contig00019 42100 43275 oqxA 0/0 100.0 99.2 EU370913.1:46651-47827 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig00019 43299 46451 oqxB 0/0 100.0 98.7 EU370913.1:47850-51003 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig00227 156 836 QnrB17 0/0 100.0 99.8 AM919398:0-681 QnrB17 is a plasmid-mediated quinolone resistance protein found in Citrobacter freundii fluoroquinolone
contig00146 9088 9948 SHV-133 0/0 100.0 99.8 AB551737:14-875 SHV-133 is a beta-lactamase. carbapenem, cephalosporin, penam
contig00227 4247 5086 sul1 0/0 100.0 100.0 JF969163:1053-1893 Sul1 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria. It is linked to other resistance genes of class 1 integrons. sulfonamide
contig00240 431 1246 sul2 0/0 100.0 100.0 AY055428.1:21084-20268 Sul2 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria usually found on small plasmids. sulfonamide
contig00264 1641 2825 tet(D) 0/0 100.0 100.0 AF467077.1:163-1348 TetD is a tetracycline efflux pump found exclusively in Gram-negative bacteria. tetracycline
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00234 78 923 (AGly)aadA16 0/0 100 99.6 EU675686:3197-4042 (AGly)aadA16 NA
contig00125 7934 8737 (AGly)strA 0/0 100 100.0 AB366441:22458-23261 (AGly)strA NA
contig00125 7098 7934 (AGly)strB 0/0 100 100.0 FJ474091:264-1100 (AGly)strB NA
contig00051 18625 19785 (Bla)ampH 0/0 100 98.8 CP003785:4208384-4209544 (Bla)ampH NA
contig00197 3145 4020 (Bla)blaCTX-M-15 0/0 100 100.0 JQ686199:261-1136 (Bla)blaCTX-M-15 NA
contig00146 9088 9948 (Bla)blaSHV-133 0/0 100 99.8 AB551737:15-875 (Bla)blaSHV-133 NA
contig00277 2116 2535 (Fcyn)FosA6 0/0 100 99.0 KU254579:59422-59841 (Fcyn)FosA6 NA
contig00019 42100 43275 (Flq)OqxA 0/0 100 99.2 EU370913:46652-47827 (Flq)OqxA NA
contig00019 43299 46451 (Flq)OqxBgb 0/0 100 98.7 EU370913:47851-51003 (Flq)OqxBgb NA
contig00227 156 836 (Flq)qnrB17 0/0 100 99.8 AM919398:1-681 (Flq)qnrB17 NA
contig00326 91 732 (Phe)catA2 0/0 100 96.1 X53796:187-903 (Phe)catA2 NA
contig00234 1710 2162 (Rif)arr3 0/0 100 100.0 JF806499:1353-1805 (Rif)arr3 NA
contig00227 4247 5086 (Sul)sul1 0/0 100 100.0 AF071413:6700-7539 (Sul)sul1 NA
contig00240 431 1246 (Sul)sul2 0/0 100 100.0 EU360945:1617-2432 (Sul)sul2 NA
contig00264 1641 2825 (Tet)tetD 0/0 100 100.0 AB089602:1521-2705 (Tet)tetD NA
contig00234 1104 1577 (Tmt)dfrA27 0/0 100 100.0 EU675686:2543-3016 (Tmt)dfrA27 NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00234 2259 2813 aac(6’)-Ib-D181Y 0/0 100 99.8 NG_067946.1 AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase AMIKACIN, KANAMYCIN, TOBRAMYCIN
contig00234 78 923 aadA16 0/0 100 100.0 NG_047339.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA16 STREPTOMYCIN
contig00125 7934 8761 aph(3’’)-Ib 0/0 100 99.9 NG_056002.2 aminoglycoside O-phosphotransferase APH(3’’)-Ib STREPTOMYCIN
contig00125 7098 7934 aph(6)-Id 0/0 100 100.0 NG_047464.1 aminoglycoside O-phosphotransferase APH(6)-Id STREPTOMYCIN
contig00234 1710 2162 arr-3 0/0 100 100.0 NG_048581.1 NAD(+)–rifampin ADP-ribosyltransferase Arr-3 RIFAMYCIN
contig00197 3145 4020 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00146 9088 9948 blaSHV-220 0/0 100 100.0 NG_062292.1 class A beta-lactamase SHV-220 BETA-LACTAM
contig00326 91 732 catA2 0/0 100 100.0 NG_047596.1 type A-2 chloramphenicol O-acetyltransferase CatII CHLORAMPHENICOL
contig00234 1104 1577 dfrA27 0/0 100 100.0 NG_047723.1 trimethoprim-resistant dihydrofolate reductase DfrA27 TRIMETHOPRIM
contig00277 2116 2535 fosA_gen 0/0 100 99.3 NG_047884.1 FosA family fosfomycin resistance glutathione transferase FOSFOMYCIN
contig00019 42100 43275 oqxA10 0/0 100 99.7 NG_050418.1 multidrug efflux RND transporter periplasmic adaptor subunit OqxA10 PHENICOL, QUINOLONE
contig00019 43299 46451 oqxB19 0/0 100 99.3 NG_050437.1 multidrug efflux RND transporter permease subunit OqxB19 PHENICOL, QUINOLONE
contig00227 192 836 qnrB6 0/0 100 99.8 NG_050523.1 quinolone resistance pentapeptide repeat protein QnrB6 QUINOLONE
contig00227 4247 5086 sul1 0/0 100 100.0 NG_048082.1 sulfonamide-resistant dihydropteroate synthase Sul1 SULFONAMIDE
contig00240 431 1246 sul2 0/0 100 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
contig00264 1641 2825 tet(D) 0/0 100 99.9 NG_048184.1 tetracycline efflux MFS transporter Tet(D) TETRACYCLINE
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00133 8234 9427 ACRA 2/3 99.8 97.7 MEG_400 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRA NA
contig00051 18625 19785 AMPH 0/0 100.0 98.8 MEG_730 Drugs:betalactams:Penicillin_binding_protein:AMPH NA
contig00234 78 923 ANT3-DPRIME 0/0 100.0 100.0 MEG_763 Drugs:Aminoglycosides:Aminoglycoside_O-nucleotidyltransferases:ANT3-DPRIME NA
contig00125 7934 8761 APH3-DPRIME 0/0 100.0 99.9 MEG_1019 Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH3-DPRIME NA
contig00125 7098 7934 APH6 0/0 100.0 100.0 MEG_1086 Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH6 NA
contig00234 1710 2202 ARR 0/0 90.8 99.2 MEG_1135 Drugs:Rifampin:Rifampin_ADP-ribosyltransferase_Arr:ARR NA
contig00261 1644 3467 ASMA 0/0 100.0 99.6 MEG_1179 Drugs:Multi-drug_resistance:Multi-drug_RND_efflux_regulator:ASMA NA
contig00326 91 732 CATA 0/0 100.0 100.0 MEG_1568 Drugs:Phenicol:Chloramphenicol_acetyltransferases:CATA NA
contig00009 10360 11058 CPXAR 0/0 100.0 99.7 MEG_2116 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR NA
contig00009 11055 12428 CPXAR 0/0 100.0 99.4 MEG_2115 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR NA
contig00081 17618 18559 CTX 1/1 99.8 95.2 MEG_2435 Drugs:betalactams:Class_A_betalactamases:CTX NA
contig00104 5872 6814 CTX 0/0 100.0 95.4 MEG_2435 Drugs:betalactams:Class_A_betalactamases:CTX NA
contig00126 4849 5791 CTX 0/0 100.0 96.8 MEG_2435 Drugs:betalactams:Class_A_betalactamases:CTX NA
contig00234 1104 1577 DFRA 0/0 100.0 100.0 MEG_2554 Drugs:Trimethoprim:Dihydrofolate_reductase:DFRA NA
contig00277 2116 2535 FOSA 0/0 100.0 99.3 MEG_2993 Drugs:Fosfomycin:Fosfomycin_thiol_transferases:FOSA NA
contig00002 54728 55960 KDEA 0/0 100.0 99.7 MEG_3447 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:KDEA NA
contig00175 3992 5164 KPN 0/0 100.0 99.4 MEG_3512 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:KPN NA
contig00108 12138 12500 KPNE 0/0 100.0 99.5 MEG_3514 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:KPNE NA
contig00108 11822 12151 KPNF 0/0 100.0 99.7 MEG_3515 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:KPNF NA
contig00076 19791 20888 KPNO 0/0 100.0 100.0 MEG_3516 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:KPNO NA
contig00063 11484 12608 OMP37 0/0 100.0 99.6 MEG_4283 Drugs:betalactams:Mutant_porin_proteins:OMP37 NA
contig00019 42100 43275 OQXA 0/0 100.0 99.7 MEG_4326 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:OQXA NA
contig00019 43299 46451 OQXB 0/0 100.0 99.3 MEG_4343 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:OQXB NA
contig00007 8773 10239 PHOR 0/0 100.0 99.9 MEG_5786 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_regulator:PHOR NA
contig00227 5080 5427 QACEDELTA1 0/0 100.0 100.0 MEG_5829 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:QACEDELTA1 NA
contig00227 156 836 QNRB 0/0 100.0 100.0 MEG_5999 Drugs:Fluoroquinolones:Quinolone_resistance_protein_Qnr:QNRB NA
contig00146 9043 10045 SHV 1/1 99.6 98.6 MEG_6428 Drugs:betalactams:Class_A_betalactamases:SHV NA
contig00227 4247 5173 SULI 0/0 100.0 100.0 MEG_6616 Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULI NA
contig00240 431 1246 SULII 0/0 100.0 100.0 MEG_6617 Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULII NA
contig00264 1641 2825 TETC 0/0 100.0 99.9 MEG_7061 Drugs:Tetracyclines:Tetracycline_resistance_MFS_efflux_pumps:TETC NA
ID022
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00312 1693 2553 aac(3)-IIa_1 0/0 100 99.8 X51534 aac(3)-IIa Gentamicin, Tobramycin
contig00322 1540 2139 aac(6’)-Ib-cr_1 0/0 100 100.0 DQ303918 aac(6’)-Ib-cr Ciprofloxacin
contig00180 2212 3000 aadA5_1 0/0 100 100.0 AF137361 aadA5 Streptomycin
contig00057 24437 25240 aph(3’’)-Ib_5 0/0 100 100.0 AF321551 aph(3’’)-Ib Streptomycin
contig00390 134 949 aph(3’)-Ia_1 0/0 100 100.0 V00359 aph(3’)-Ia
contig00057 23601 24437 aph(6)-Id_1 0/0 100 100.0 M28829 aph(6)-Id Streptomycin
contig00057 5876 6751 blaCTX-M-15_1 0/0 100 100.0 AY044436 blaCTX-M-15 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00322 579 1409 blaOXA-1_1 0/0 100 100.0 HQ170510 blaOXA-1 Amoxicillin, Amoxicillin+Clavulanic_acid, Ampicillin, Ampicillin+Clavulanic_acid, Cefepime, Piperacillin, Piperacillin+Tazobactam
contig00236 3986 4852 blaSHV-187_1 0/0 100 99.5 LN515533 blaSHV-187
contig00057 9573 10433 blaTEM-1C_1 0/0 100 100.0 FJ560503 blaTEM-1C Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin
contig00363 89 730 catA2_1 0/0 100 96.1 X53796 catA2 Chloramphenicol
contig00180 1608 2081 dfrA17_1 0/0 100 100.0 FJ460238 dfrA17 Trimethoprim
contig00146 10744 11163 fosA6_1 0/0 97 99.3 KU254579 fosA6 Fosfomycin
contig00374 68 989 mph(A)_2 1/1 100 99.7 U36578 mph(A) Erythromycin, Azithromycin, Spiramycin, Telithromycin
contig00031 10059 11234 oqxA_1 0/0 100 99.7 EU370913 oqxA Nalidixic_acid, Ciprofloxacin
contig00031 6883 10035 oqxB_1 0/0 100 98.8 EU370913 oqxB Nalidixic_acid, Ciprofloxacin
contig00057 11911 12567 qnrS1_1 0/0 100 100.0 AB187515 qnrS1 Ciprofloxacin
contig00180 3520 4386 sul1_5 0/0 100 99.9 EU780013 sul1 Sulfamethoxazole
contig00057 25301 26116 sul2_2 0/0 100 100.0 AY034138 sul2 Sulfamethoxazole
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00312 1693 2553 AAC(3)-IIe 0/0 100.0 99.5 EU022315.1:0-861 AAC(3)-IIe is a plasmid-encoded aminoglycoside acetyltransferase in E. coli aminoglycoside
contig00322 1540 2139 AAC(6’)-Ib-cr 0/0 100.0 100.0 DQ303918:0-600 AAC(6’)-Ib-cr is an aminoglycoside acetyltransferase encoded by plasmids transposons integrons in Enterobacteriaceae. The aac(6’)-Ib-cr variant gene can induce resistance against aminoglycoside and fluoroquinolone simultaneously aminoglycoside, fluoroquinolone
contig00180 2212 3000 aadA5 0/0 100.0 100.0 AF137361:63-852 aadA5 is an aminoglycoside nucleotidyltransferase gene encoded by plasmids transposons and integrons in E. coli K. pneumoniae Kluyvera georgiana P. aeruginosa and E. cloacae aminoglycoside
contig00057 24437 25240 APH(3’’)-Ib 0/0 100.0 99.8 AF313472:15593-16397 APH(3’’)-Ib is an aminoglycoside phosphotransferase encoded by plasmids transposons integrative conjugative elements and chromosomes in Enterobacteriaceae and Pseudomonas spp. aminoglycoside
contig00390 136 949 APH(3’)-Ia 0/0 99.8 99.4 BX664015.1:103833-103017 APH(3’)-Ia is a transposon-encoded aminoglycoside phosphotransferase in E. coli and S. enterica. It is identical at the protein sequence to APH(3’)-Ic an aminoglycoside phosphotransferase encoded by plasmids transposons and genomic islands in K. pneumoniae A. baumannii S. marcescens Corynebacterium spp. Photobacterium spp. and Citrobacter spp. aminoglycoside
contig00057 23601 24437 APH(6)-Id 0/0 100.0 99.9 AF024602:3155-3992 APH(6)-Id is an aminoglycoside phosphotransferase encoded by plasmids integrative conjugative elements and chromosomal genomic islands in K. pneumoniae Salmonella spp. E. coli Shigella flexneri Providencia alcalifaciens Pseudomonas spp. V. cholerae Edwardsiella tarda Pasteurella multocida and Aeromonas bestiarum aminoglycoside
contig00363 89 730 catII_from_Escherichia_coli_K-12 0/0 100.0 96.1 X53796.1:186-828 catII is a chloramphenicol acetyltransferase. This particular catII is found in E.coli K-12. Confers resistance to chloramphenicol. phenicol
contig00057 5876 6751 CTX-M-15 0/0 100.0 100.0 AY044436:1435-2311 CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00180 1608 2081 dfrA17 0/0 100.0 100.0 DQ838665:0-474 dfrA17 is an integron-encoded dihydrofolate reductase found in Escherichia coli diaminopyrimidine
contig00146 10744 11163 FosA6 0/0 100.0 99.3 KU254579.1:59421-59841 fosA6 is a plasmid-encoded enzyme that confers resistance to fosfomycin in Escherichia coli by breaking the epoxide ring of the molecule. fosfomycin
contig00004 8100 9293 Klebsiella_pneumoniae_acrA 2/3 99.8 97.8 AJ318073.1:793-1990 AcrA is a subunit of the AcrAB multidrug efflux system that in K. pneumoniae which is encoded by the acrRAB operon. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00097 14925 15287 Klebsiella_pneumoniae_KpnE 0/0 100.0 98.9 AP006725.1:2483889-2484252 KpnE subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline
contig00097 14609 14938 Klebsiella_pneumoniae_KpnF 0/0 100.0 98.8 AP006725.1:2484238-2484568 KpnF subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan. aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline
contig00181 4002 5174 Klebsiella_pneumoniae_KpnG 0/0 100.0 99.1 ACWO01000051.1:22092-23265 KpnG consists of ~390 residues and resembles EmrA of E. coli. Disruption of the pump components KpnG-KpnH signficantly decrease resistance to azithromycin ceftazidime ciprofloxacin ertapenem erythromycin gentamicin imipenem ticarcillin norfloxacin polymyxin-B piperacillin spectinomycin tobramycin and streptomycin aminoglycoside, carbapenem, cephalosporin, fluoroquinolone, macrolide, penam, penem, peptide
contig00125 4465 5589 Klebsiella_pneumoniae_OmpK37 0/0 100.0 99.2 AJ011502.1:300-1425 Klebsiella pneumoniae outer membrane porin protein. Is preferentially detected in porin-deficient strains. Functional characterization of this new porin revealed a narrower pore than those of porins OmpK35 and OmpK36 which did not allow penetration by certain beta-lactams. Also when a resistant strain expresses porin OmpK37 is less susceptible to cefotaxime and cefoxitin than when it is expressing either OmpK36 or OmpK35. carbapenem, cephalosporin, cephamycin, monobactam, penam, penem
contig00374 68 973 mphA 0/0 100.0 100.0 D16251.1:2531-1625 The mphA gene encodes for resistance enzyme MPH(2’)-I which preferentially inactivate 14-membered macrolides (e.g.erythromycin telithromycin roxithromycin) over 16-membered macrolides (e.g.tylosin spiramycin). It phosphorylates macrolides at 2’-OH hydroxyl of desosamine sugar of macrolides in a GTP-dependent manner. macrolide
contig00031 10059 11234 oqxA 0/0 100.0 99.7 EU370913.1:46651-47827 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig00031 6883 10035 oqxB 0/0 100.0 98.8 EU370913.1:47850-51003 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig00322 579 1409 OXA-1 0/0 100.0 100.0 JN420336.1:2230-1399 OXA-1 is a beta-lactamase found in E. coli cephalosporin, penam
contig00057 11911 12567 QnrS1 0/0 100.0 100.0 DQ485529.1:0-657 QnrS1 is a plasmid-mediated quinolone resistance protein found in Shigella flexneri fluoroquinolone
contig00236 3986 4852 SHV-187 0/0 100.0 99.5 LN515533:0-867 From the Lahey list of beta-lactamases. carbapenem, cephalosporin, penam
contig00180 3547 4386 sul1 0/0 100.0 100.0 JF969163:1053-1893 Sul1 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria. It is linked to other resistance genes of class 1 integrons. sulfonamide
contig00057 25301 26116 sul2 0/0 100.0 100.0 AY055428.1:21084-20268 Sul2 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria usually found on small plasmids. sulfonamide
contig00057 9573 10433 TEM-1 0/0 100.0 99.9 AL513383:161910-162771 TEM-1 is a broad-spectrum beta-lactamase found in many Gram-negative bacteria. Confers resistance to penicillins and first generation cephalosphorins. cephalosporin, monobactam, penam, penem
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00312 1693 2553 (AGly)aac3-IIa 0/0 100 99.8 X51534:91-951 (AGly)aac3-IIa NA
contig00180 2212 3000 (AGly)aadA5 0/0 100 100.0 AF137361:64-852 (AGly)aadA5 NA
contig00390 134 949 (AGly)aph3-Ia 0/0 100 99.9 HQ840942:23569-24384 (AGly)aph3-Ia NA
contig00057 24437 25240 (AGly)strA 0/0 100 99.9 AB366441:22458-23261 (AGly)strA NA
contig00057 23601 24437 (AGly)strB 0/0 100 100.0 FJ474091:264-1100 (AGly)strB NA
contig00056 18585 19745 (Bla)ampH 0/0 100 99.3 CP003785:4208384-4209544 (Bla)ampH NA
contig00057 5876 6751 (Bla)blaCTX-M-15 0/0 100 100.0 JQ686199:261-1136 (Bla)blaCTX-M-15 NA
contig00322 579 1409 (Bla)blaOXA-1 0/0 100 100.0 JQ682867:1-831 (Bla)blaOXA-1 NA
contig00236 3986 4852 (Bla)blaSHV-187 0/0 100 99.5 LN515533:1-867 (Bla)blaSHV-187 NA
contig00057 9573 10433 (Bla)blaTEM-135 0/0 100 99.9 JQ060998:1-861 (Bla)blaTEM-135 NA
contig00146 10744 11163 (Fcyn)FosA6 0/0 100 99.3 KU254579:59422-59841 (Fcyn)FosA6 NA
contig00031 10059 11234 (Flq)OqxA 0/0 100 99.7 EU370913:46652-47827 (Flq)OqxA NA
contig00031 6883 10035 (Flq)OqxBgb 0/0 100 98.8 EU370913:47851-51003 (Flq)OqxBgb NA
contig00057 11911 12567 (Flq)qnr-S1 0/0 100 100.0 AB187515:9737-10393 (Flq)qnr-S1 NA
contig00374 68 973 (MLS)mph(A) 0/0 100 100.0 DQ445270:1626-2531 (MLS)mph(A) NA
contig00363 89 730 (Phe)catA2 0/0 100 96.1 X53796:187-903 (Phe)catA2 NA
contig00180 3547 4386 (Sul)sul1 0/0 100 100.0 AF071413:6700-7539 (Sul)sul1 NA
contig00057 25301 26116 (Sul)sul2 0/0 100 100.0 EU360945:1617-2432 (Sul)sul2 NA
contig00180 1608 2081 (Tmt)dfrA17 0/0 100 100.0 AB126604:98-571 (Tmt)dfrA17 NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00312 1693 2553 aac(3)-IIe 0/0 100 99.8 NG_047244.1 aminoglycoside N-acetyltransferase AAC(3)-IIe GENTAMICIN
contig00322 1540 2094 aac(6’)-Ib-D181Y 0/0 100 99.8 NG_067946.1 AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase AMIKACIN, KANAMYCIN, TOBRAMYCIN
contig00180 2212 3000 aadA5 0/0 100 100.0 NG_047357.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA5 STREPTOMYCIN
contig00057 24437 25264 aph(3’’)-Ib 0/0 100 100.0 NG_056002.2 aminoglycoside O-phosphotransferase APH(3’’)-Ib STREPTOMYCIN
contig00390 134 949 aph(3’)-Ia 0/0 100 100.0 NG_047430.1 aminoglycoside O-phosphotransferase APH(3’)-Ia KANAMYCIN
contig00057 23601 24437 aph(6)-Id 0/0 100 100.0 NG_047464.1 aminoglycoside O-phosphotransferase APH(6)-Id STREPTOMYCIN
contig00057 5876 6751 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00322 579 1409 blaOXA-1 0/0 100 100.0 NG_049392.1 oxacillin-hydrolyzing class D beta-lactamase OXA-1 CEPHALOSPORIN
contig00236 3986 4852 blaSHV-187 0/0 100 99.5 NG_050053.1 class A beta-lactamase SHV-187 BETA-LACTAM
contig00057 9573 10433 blaTEM-235 0/0 100 99.9 NG_059898.1 class A beta-lactamase TEM-235 BETA-LACTAM
contig00363 89 730 catA2 0/0 100 100.0 NG_047596.1 type A-2 chloramphenicol O-acetyltransferase CatII CHLORAMPHENICOL
contig00180 1608 2081 dfrA17 0/0 100 99.8 NG_047710.1 trimethoprim-resistant dihydrofolate reductase DfrA17 TRIMETHOPRIM
contig00146 10744 11163 fosA6 0/0 100 99.3 NG_051497.1 fosfomycin resistance glutathione transferase FosA6 FOSFOMYCIN
contig00374 68 989 mph(A) 1/1 100 99.7 NG_047986.1 Mph(A) family macrolide 2’-phosphotransferase MACROLIDE
contig00031 10059 11234 oqxA8 0/0 100 99.8 NG_050426.1 multidrug efflux RND transporter periplasmic adaptor subunit OqxA8 PHENICOL, QUINOLONE
contig00031 6883 10035 oqxB11 0/0 100 99.3 NG_050429.1 multidrug efflux RND transporter permease subunit OqxB11 PHENICOL, QUINOLONE
contig00057 11911 12567 qnrS1 0/0 100 100.0 NG_050543.1 quinolone resistance pentapeptide repeat protein QnrS1 QUINOLONE
contig00180 3547 4386 sul1 0/0 100 100.0 NG_048082.1 sulfonamide-resistant dihydropteroate synthase Sul1 SULFONAMIDE
contig00057 25301 26116 sul2 0/0 100 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00312 1693 2553 AAC3 0/0 100.0 99.8 MEG_44 Drugs:Aminoglycosides:Aminoglycoside_N-acetyltransferases:AAC3 NA
contig00004 8100 9293 ACRA 2/3 99.8 97.8 MEG_400 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRA NA
contig00056 18585 19745 AMPH 0/0 100.0 99.3 MEG_730 Drugs:betalactams:Penicillin_binding_protein:AMPH NA
contig00180 2212 3000 ANT3-DPRIME 0/0 100.0 100.0 MEG_928 Drugs:Aminoglycosides:Aminoglycoside_O-nucleotidyltransferases:ANT3-DPRIME NA
contig00057 24437 25264 APH3-DPRIME 0/0 100.0 100.0 MEG_1019 Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH3-DPRIME NA
contig00390 134 949 APH3-PRIME 0/0 100.0 100.0 MEG_1079 Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH3-PRIME NA
contig00057 23601 24437 APH6 0/0 100.0 100.0 MEG_1086 Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH6 NA
contig00025 1757 3580 ASMA 0/0 100.0 99.7 MEG_1179 Drugs:Multi-drug_resistance:Multi-drug_RND_efflux_regulator:ASMA NA
contig00363 89 730 CATA 0/0 100.0 100.0 MEG_1568 Drugs:Phenicol:Chloramphenicol_acetyltransferases:CATA NA
contig00002 22564 23262 CPXAR 0/0 100.0 99.9 MEG_2116 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR NA
contig00002 23259 24632 CPXAR 0/0 100.0 99.8 MEG_2115 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR NA
contig00180 1608 2081 DFRA 0/0 100.0 100.0 MEG_2547 Drugs:Trimethoprim:Dihydrofolate_reductase:DFRA NA
contig00146 10744 11163 FOSA 0/0 100.0 99.3 MEG_2987 Drugs:Fosfomycin:Fosfomycin_thiol_transferases:FOSA NA
contig00010 18954 20186 KDEA 0/0 100.0 99.5 MEG_3447 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:KDEA NA
contig00181 4002 5174 KPN 0/0 100.0 99.1 MEG_3512 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:KPN NA
contig00097 14925 15287 KPNE 0/0 100.0 98.9 MEG_3514 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:KPNE NA
contig00097 14609 14938 KPNF 0/0 100.0 98.8 MEG_3515 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:KPNF NA
contig00077 19662 20759 KPNO 0/0 100.0 100.0 MEG_3516 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:KPNO NA
contig00374 68 989 MPHA 1/1 100.0 99.7 MEG_4030 Drugs:MLS:Macrolide_phosphotransferases:MPHA NA
contig00125 4465 5589 OMP37 0/0 100.0 99.2 MEG_4283 Drugs:betalactams:Mutant_porin_proteins:OMP37 NA
contig00031 10059 11234 OQXA 0/0 100.0 99.8 MEG_4327 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:OQXA NA
contig00031 6883 10035 OQXB 0/0 100.0 99.3 MEG_4364 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:OQXB NA
contig00322 579 1409 OXA 0/0 100.0 100.0 MEG_4980 Drugs:betalactams:Class_D_betalactamases:OXA NA
contig00018 1416 2882 PHOR 0/0 100.0 99.9 MEG_5786 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_regulator:PHOR NA
contig00057 11911 12567 QNRS 0/0 100.0 100.0 MEG_6020 Drugs:Fluoroquinolones:Quinolone_resistance_protein_Qnr:QNRS NA
contig00236 3946 4949 SHV 0/0 99.7 98.9 MEG_6428 Drugs:betalactams:Class_A_betalactamases:SHV NA
contig00180 3546 4513 SULI 0/0 100.0 100.0 MEG_6615 Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULI NA
contig00057 25301 26116 SULII 0/0 100.0 100.0 MEG_6617 Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULII NA
contig00057 9206 10451 TEM 0/0 98.3 99.6 MEG_6875 Drugs:betalactams:Class_A_betalactamases:TEM NA
ID030III
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00095 843 1646 aph(3’’)-Ib_5 0/0 100.0 100.0 AF321551 aph(3’’)-Ib Streptomycin
contig00095 7 843 aph(6)-Id_1 0/0 100.0 100.0 M28829 aph(6)-Id Streptomycin
contig00083 6054 6929 blaCTX-M-55_1 0/0 100.0 100.0 DQ810789 blaCTX-M-55 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00112 530 1390 blaTEM-1B_1 0/0 100.0 100.0 AY458016 blaTEM-1B Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin
contig00013 92244 92903 catA1_1 0/0 100.0 99.8 V00622 catA1 Chloramphenicol
contig00130 91 732 catA2_1 0/0 100.0 96.1 X53796 catA2 Chloramphenicol
contig00013 98927 99500 dfrA7_5 3/4 100.0 98.8 AJ419170 dfrA7 Trimethoprim
contig00020 26708 27940 mdf(A)_1 0/0 100.0 99.3 Y08743 mdf(A)
contig00083 757 1413 qnrS1_1 0/0 100.0 100.0 AB187515 qnrS1 Ciprofloxacin
contig00013 99944 100730 sul1_5 0/0 90.8 99.9 EU780013 sul1 Sulfamethoxazole
contig00095 1707 2522 sul2_3 0/0 100.0 100.0 HQ840942 sul2 Sulfamethoxazole
contig00100 729 1975 tet(A)_6 0/0 97.8 100.0 AF534183 tet(A) Doxycycline, Tetracycline
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00050 3025 6174 acrB 0/0 100.0 99.4 U00096.3:484403-481253 Protein subunit of AcrA-AcrB-TolC multidrug efflux complex. AcrB functions as a herterotrimer which forms the inner membrane component and is primarily responsible for substrate recognition and energy transduction by acting as a drug/proton antiporter. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00037 11080 14193 acrD 0/0 100.0 99.3 AP009048.1:2586250-2589364 AcrD is an aminoglycoside efflux pump expressed in E. coli. Its expression can be induced by indole and is regulated by baeRS and cpxAR. aminoglycoside
contig00009 116839 117995 acrE 0/0 99.9 99.0 U00096:3413863-3415021 AcrE is a membrane fusion protein similar to AcrA. cephalosporin, cephamycin, fluoroquinolone, penam
contig00009 118008 121112 acrF 0/0 100.0 99.0 U00096:3415032-3418137 AcrF is a inner membrane transporter similar to AcrB. cephalosporin, cephamycin, fluoroquinolone, penam
contig00009 115778 116440 acrS 0/0 100.0 99.1 U00096:3413465-3412802 AcrS is a repressor of the AcrAB efflux complex and is associated with the expression of AcrEF. AcrS is believed to regulate a switch between AcrAB and AcrEF efflux. cephalosporin, cephamycin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00095 843 1646 APH(3’’)-Ib 0/0 100.0 99.8 AF313472:15593-16397 APH(3’’)-Ib is an aminoglycoside phosphotransferase encoded by plasmids transposons integrative conjugative elements and chromosomes in Enterobacteriaceae and Pseudomonas spp. aminoglycoside
contig00095 7 843 APH(6)-Id 0/0 100.0 99.9 AF024602:3155-3992 APH(6)-Id is an aminoglycoside phosphotransferase encoded by plasmids integrative conjugative elements and chromosomal genomic islands in K. pneumoniae Salmonella spp. E. coli Shigella flexneri Providencia alcalifaciens Pseudomonas spp. V. cholerae Edwardsiella tarda Pasteurella multocida and Aeromonas bestiarum aminoglycoside
contig00005 65864 66685 bacA 0/0 100.0 99.6 U00096.3:3204131-3203309 The bacA gene product (BacA) recycles undecaprenyl pyrophosphate during cell wall biosynthesis which confers resistance to bacitracin. peptide
contig00003 129600 130322 baeR 0/0 100.0 100.0 AP009048.1:2166412-2167135 BaeR is a response regulator that promotes the expression of MdtABC and AcrD efflux complexes. aminocoumarin, aminoglycoside
contig00003 130319 131722 baeS 0/0 100.0 100.0 AP009048:2165012-2166416 BaeS is a sensor kinase in the BaeSR regulatory system. While it phosphorylates BaeR to increase its activity BaeS is not necessary for overexpressed BaeR to confer resistance. aminocoumarin, aminoglycoside
contig00013 92244 92903 catI 0/0 100.0 99.8 V00622:243-903 catI is a chromosome and transposon-encoded variant of the cat gene found in Escherichia coli and Acinetobacter baumannii phenicol
contig00130 91 732 catII_from_Escherichia_coli_K-12 0/0 100.0 96.1 X53796.1:186-828 catII is a chloramphenicol acetyltransferase. This particular catII is found in E.coli K-12. Confers resistance to chloramphenicol. phenicol
contig00022 61915 63288 cpxA 0/0 100.0 98.8 BA000007.3:4905062-4903688 CpxA is a membrane-localized sensor kinase that is activated by envelope stress. It starts a kinase cascade that activates CpxR which promotes efflux complex expression. aminocoumarin, aminoglycoside
contig00011 15273 15905 CRP 0/0 100.0 99.4 AP009048.1:4154296-4153663 CRP is a global regulator that represses MdtEF multidrug efflux pump expression. fluoroquinolone, macrolide, penam
contig00083 6054 6929 CTX-M-55 0/0 100.0 100.0 DQ885477:0-876 CTX-M-55 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00013 98927 99400 dfrA7 0/0 100.0 100.0 FJ854362:2338-2812 dfrA7 is an integron-encoded dihydrofolate reductase found in Escherichia coli diaminopyrimidine
contig00068 8239 9411 emrA 0/0 100.0 99.6 AP009048:2810082-2811255 EmrA is a membrane fusion protein providing an efflux pathway with EmrB and TolC between the inner and outer membranes of E. coli a Gram-negative bacterium. fluoroquinolone
contig00068 9428 10966 emrB 0/0 100.0 100.0 U00096:2812615-2814154 emrB is a translocase in the emrB -TolC efflux protein in E. coli. It recognizes substrates including carbonyl cyanide m-chlorophenylhydrazone (CCCP) nalidixic acid and thioloactomycin. fluoroquinolone
contig00015 65145 66200 emrK 0/0 100.0 99.9 D78168:536-1592 emrK is a membrane fusion protein that is a homolog of EmrA. Together with the inner membrane transporter EmrY and the outer membrane channel TolC it mediates multidrug efflux. tetracycline
contig00068 7582 8112 emrR 0/0 100.0 100.0 U00096.3:2810769-2811300 EmrR is a negative regulator for the EmrAB-TolC multidrug efflux pump in E. coli. Mutations lead to EmrAB-TolC overexpression. fluoroquinolone
contig00015 63607 65145 emrY 0/0 100.0 99.0 D78168:1591-3130 emrY is a multidrug transport that moves substrates across the inner membrane of the Gram-negative E. coli. It is a homolog of emrB. tetracycline
contig00019 17535 19178 eptA 0/0 100.0 99.8 AP009048:4340268-4338624 PmrC mediates the modification of Lipid A by the addition of 4-amino-4-deoxy-L-arabinose (L-Ara4N) and phosphoethanolamine resulting in a less negative cell membrane and decreased binding of polymyxin B. peptide
contig00050 6197 7390 Escherichia_coli_acrA 0/0 100.0 99.9 U00096.3:485619-484425 AcrA is a subunit of the AcrAB-TolC multidrug efflux system that in E. coli. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00002 45251 46384 Escherichia_coli_ampC 0/0 100.0 97.3 U00096.3:4378944-4377810 A class C ampC beta-lactamase (cephalosporinase) enzyme described in Escherichia coli shown clinically to confer resistance to penicillin-like and cephalosporin-class antibiotics. cephalosporin, penam
contig00040 28343 29647 Escherichia_coli_ampC1_beta-lactamase 0/0 100.0 99.2 FN649414.1:2765050-2766355 An ampC-like beta-lactamase identified from Escherichia coli. cephalosporin, penam
contig00018 3404 4561 Escherichia_coli_ampH 0/0 100.0 98.9 AP012030.1:396711-395553 AmpH is a class C ampC-like beta-lactamase and penicillin-binding protein identified in Escherichia coli. cephalosporin, penam
contig00070 2032 2364 Escherichia_coli_emrE 0/0 100.0 91.9 Z11877.1:485-818 Member of the small MDR (multidrug resistance) family of transporters, in Escherichia coli this protein provides resistance against a number of positively charged compounds including ethidium bromide and erythromycin, proton-dependent secondary transporter which exchanges protons for compound translocation macrolide
contig00020 26708 27940 Escherichia_coli_mdfA 0/0 100.0 97.8 JQ394987:0-1233 Multidrug efflux pump in E. coli. This multidrug efflux system was originally identified as the Cmr/CmlA chloramphenicol exporter. benzalkonium_chloride, rhodamine, tetracycline
contig00015 66724 67338 evgA 0/0 100.0 100.0 BA000007.3:3212025-3212640 EvgA when phosphorylated is a positive regulator for efflux protein complexes emrKY and mdtEF. While usually phosphorylated in a EvgS dependent manner it can be phosphorylated in the absence of EvgS when overexpressed. fluoroquinolone, macrolide, penam, tetracycline
contig00015 67343 70936 evgS 0/0 100.0 99.9 U00096:2484373-2487967 EvgS is a sensor protein that phosphorylates the regulatory protein EvgA. evgS corresponds to 1 locus in Pseudomonas aeruginosa PAO1 and 1 locus in Pseudomonas aeruginosa LESB58. fluoroquinolone, macrolide, penam, tetracycline
contig00023 31846 32574 gadW 0/0 100.0 94.7 CP015085.1:2552440-2551711 GadW is an AraC-family regulator that promotes mdtEF expression to confer multidrug resistance. GadW inhibits GadX-dependent activation. GadW clearly represses gadX and in situations where GadX is missing activates gadA and gadBC. fluoroquinolone, macrolide, penam
contig00023 30654 31478 gadX 0/0 100.0 99.9 AP009048.1:3974604-3975429 GadX is an AraC-family regulator that promotes mdtEF expression to confer multidrug resistance. fluoroquinolone, macrolide, penam
contig00024 38183 38596 H-NS 0/0 100.0 99.0 BA000007.3:1738104-1737690 H-NS is a histone-like protein involved in global gene regulation in Gram-negative bacteria. It is a repressor of the membrane fusion protein genes acrE mdtE and emrK as well as nearby genes of many RND-type multidrug exporters. cephalosporin, cephamycin, fluoroquinolone, macrolide, penam, tetracycline
contig00062 8065 8742 kdpE 0/0 100.0 99.1 U00096.3:721733-721055 kdpE is a transcriptional activator that is part of the two-component system KdpD/KdpE that is studied for its regulatory role in potassium transport and has been identified as an adaptive regulator involved in the virulence and intracellular survival of pathogenic bacteria. kdpE regulates a range of virulence loci through direct promoter binding. aminoglycoside
contig00046 3021 3404 marA 0/0 100.0 100.0 AP009048.1:1621287-1621671 In the presence of antibiotic stress E. coli overexpresses the global activator protein MarA which besides inducing MDR efflux pump AcrAB also down- regulates synthesis of the porin OmpF. carbapenem, cephalosporin, cephamycin, fluoroquinolone, glycylcycline, monobactam, penam, penem, phenicol, rifamycin, tetracycline, triclosan
contig00003 139335 140582 mdtA 0/0 100.0 100.0 U00096:2154015-2155263 MdtA is the membrane fusion protein of the multidrug efflux complex mdtABC. aminocoumarin
contig00003 136213 139335 mdtB 0/0 100.0 99.8 U00096:2155262-2158385 MdtB is a transporter that forms a heteromultimer complex with MdtC to form a multidrug transporter. MdtBC is part of the MdtABC-TolC efflux complex. aminocoumarin
contig00003 133135 136212 mdtC 0/0 100.0 99.9 U00096:2158385-2161463 MdtC is a transporter that forms a heteromultimer complex with MdtB to form a multidrug transporter. MdtBC is part of the MdtABC-TolC efflux complex. In the absence of MdtB MdtC can form a homomultimer complex that results in a functioning efflux complex with a narrower drug specificity. mdtC corresponds to 3 loci in Pseudomonas aeruginosa PAO1 (gene name: muxC/muxB) and 3 loci in Pseudomonas aeruginosa LESB58. aminocoumarin
contig00023 36075 37232 mdtE 0/0 100.0 100.0 AP009048.1:3981183-3980025 MdtE is the membrane fusion protein of the MdtEF multidrug efflux complex. It shares 70% sequence similarity with AcrA. fluoroquinolone, macrolide, penam
contig00023 32937 36050 mdtF 0/0 100.0 100.0 U00096:3660413-3663527 MdtF is the multidrug inner membrane transporter for the MdtEF-TolC efflux complex. fluoroquinolone, macrolide, penam
contig00007 121966 123192 mdtG 0/0 100.0 99.5 CP000800.1:1192954-1191727 The MdtG protein also named YceE appears to be a member of the major facilitator superfamily of transporters and it has been reported when overexpressed to increase fosfomycin and deoxycholate resistances. mdtG is a member of the marA-soxS-rob regulon. fosfomycin
contig00007 112127 113335 mdtH 0/0 100.0 98.3 U00096:1125326-1124117 Multidrug resistance protein MdtH fluoroquinolone
contig00055 5685 6917 mdtM 0/0 100.0 96.3 U00096.3:4568519-4567286 Multidrug resistance protein MdtM acridine_dye, fluoroquinolone, lincosamide, nucleoside, phenicol
contig00019 48710 49741 mdtN 0/0 100.0 99.9 AP009048.1:4307588-4306556 Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride. acridine_dye, nucleoside
contig00019 49741 51792 mdtO 0/0 100.0 99.1 AP009048.1:4306557-4304505 Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride acridine_dye, nucleoside
contig00019 51789 53255 mdtP 0/0 100.0 100.0 AP009048.1:4304509-4303042 Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride acridine_dye, nucleoside
contig00006 9600 10076 mphB 0/0 100.0 98.3 AE005174.2:3397370-3397847 The mphB gene encodes for MPH(2’)-II. This enzymes phosphorylates 14-membered and 16-membered macrolides. It phosphorylates macrolides in GTP- dependent manner at 2’-OH hydroxyl of desosamine sugar of macrolides. macrolide
contig00004 87355 89103 msbA 0/0 100.0 100.0 U00096.3:966620-968369 MsbA is a multidrug resistance transporter homolog from E. coli and belongs to a superfamily of transporters that contain an adenosine triphosphate (ATP) binding cassette (ABC) which is also called a nucleotide-binding domain (NBD). MsbA is a member of the MDR-ABC transporter group by sequence homology. MsbA transports lipid A a major component of the bacterial outer cell membrane and is the only bacterial ABC transporter that is essential for cell viability. nitroimidazole
contig00012 61747 62715 pmrF 0/0 100.0 99.6 U00096:2367070-2368039 PmrF is required for the synthesis and transfer of 4-amino-4-deoxy-L-arabinose (Ara4N) to Lipid A which allows gram-negative bacteria to resist the antimicrobial activity of cationic antimicrobial peptides and antibiotics such as polymyxin. pmrF corresponds to 1 locus in Pseudomonas aeruginosa PAO1 and 1 locus in Pseudomonas aeruginosa LESB58. peptide
contig00083 757 1413 QnrS1 0/0 100.0 100.0 DQ485529.1:0-657 QnrS1 is a plasmid-mediated quinolone resistance protein found in Shigella flexneri fluoroquinolone
contig00013 99971 100730 sul1 0/0 90.5 100.0 JF969163:1053-1893 Sul1 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria. It is linked to other resistance genes of class 1 integrons. sulfonamide
contig00095 1707 2522 sul2 0/0 100.0 99.6 AY055428.1:21084-20268 Sul2 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria usually found on small plasmids. sulfonamide
contig00112 530 1390 TEM-1 0/0 100.0 99.9 AL513383:161910-162771 TEM-1 is a broad-spectrum beta-lactamase found in many Gram-negative bacteria. Confers resistance to penicillins and first generation cephalosphorins. cephalosporin, monobactam, penam, penem
contig00100 729 1975 tet(A) 0/0 97.8 100.0 AF534183.1:2970-4245 TetA is a tetracycline efflux pump found in many species of Gram-negative bacteria. tetracycline
contig00005 42002 43489 tolC 0/0 100.0 99.8 FJ768952:0-1488 TolC is a protein subunit of many multidrug efflux complexes in Gram negative bacteria. It is an outer membrane efflux protein and is constitutively open. Regulation of efflux activity is often at its periplasmic entrance by other components of the efflux complex. aminocoumarin, aminoglycoside, carbapenem, cephalosporin, cephamycin, fluoroquinolone, glycylcycline, macrolide, penam, penem, peptide, phenicol, rifamycin, tetracycline, triclosan
contig00012 1996 3639 yojI 0/0 100.0 99.8 U00096.3:2308615-2306971 YojI mediates resistance to the peptide antibiotic microcin J25 when it is expressed from a multicopy vector. YojI is capable of pumping out microcin molecules. The outer membrane protein TolC in addition to YojI is required for export of microcin J25 out of the cell. Microcin J25 is thus the first known substrate for YojI. peptide
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00095 843 1646 (AGly)strA 0/0 100.0 99.9 AB366441:22458-23261 (AGly)strA NA
contig00095 7 843 (AGly)strB 0/0 100.0 100.0 FJ474091:264-1100 (AGly)strB NA
contig00040 28343 29647 (Bla)AmpC1_Ecoli 0/0 100.0 99.2 FN649414:2765051-2766355 (Bla)AmpC1_Ecoli NA
contig00002 45251 46384 (Bla)AmpC2_Ecoli 0/0 100.0 97.3 CP002970:332756-333889 (Bla)AmpC2_Ecoli NA
contig00018 3404 4561 (Bla)ampH_Ecoli 0/0 100.0 98.9 AP012030:395554-396711 (Bla)ampH_Ecoli NA
contig00083 6054 6929 (Bla)blaCTX-M-55 0/0 100.0 100.0 HM748991:321-1196 (Bla)blaCTX-M-55 NA
contig00112 530 1390 (Bla)blaTEM-105 0/0 100.0 99.9 AF516720:215-1075 (Bla)blaTEM-105 NA
contig00017 31036 32937 (Bla)Penicillin_Binding_Protein_Ecoli 0/0 100.0 99.4 CP002291:664439-666340 (Bla)Penicillin_Binding_Protein_Ecoli NA
contig00083 757 1413 (Flq)qnr-S1 0/0 100.0 100.0 AB187515:9737-10393 (Flq)qnr-S1 NA
contig00013 92244 92903 (Phe)catA1 0/0 100.0 99.8 V00622:244-903 (Phe)catA1 NA
contig00130 91 732 (Phe)catA2 0/0 100.0 96.1 X53796:187-903 (Phe)catA2 NA
contig00013 99971 100730 (Sul)sul1 0/0 90.5 100.0 AF071413:6700-7539 (Sul)sul1 NA
contig00095 1707 2522 (Sul)sul2 0/0 100.0 99.6 EU360945:1617-2432 (Sul)sul2 NA
contig00100 729 2003 (Tet)tetA 0/0 100.0 100.0 JX424423:94438-95712 (Tet)tetA NA
contig00100 48 698 (Tet)tetR 0/0 100.0 100.0 HF545434:53576-54226 (Tet)tetR NA
contig00013 98927 99400 (Tmt)dhfr7 0/0 100.0 100.0 X58425:594-1067 (Tmt)dhfr7 NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00095 843 1670 aph(3’’)-Ib 0/0 100.0 100.0 NG_056002.2 aminoglycoside O-phosphotransferase APH(3’’)-Ib STREPTOMYCIN
contig00095 7 843 aph(6)-Id 0/0 100.0 100.0 NG_047464.1 aminoglycoside O-phosphotransferase APH(6)-Id STREPTOMYCIN
contig00083 6054 6929 blaCTX-M-55 0/0 100.0 100.0 NG_049006.1 class A extended-spectrum beta-lactamase CTX-M-55 CEPHALOSPORIN
contig00002 45251 46384 blaEC-15 0/0 100.0 98.6 NG_049081.1 class C extended-spectrum beta-lactamase EC-15 CEPHALOSPORIN
contig00112 530 1390 blaTEM-1 0/0 100.0 100.0 NG_050145.1 class A broad-spectrum beta-lactamase TEM-1 BETA-LACTAM
contig00013 92244 92903 catA1 0/0 100.0 99.8 NG_047582.1 type A-1 chloramphenicol O-acetyltransferase CHLORAMPHENICOL
contig00130 91 732 catA2 0/0 100.0 100.0 NG_047596.1 type A-2 chloramphenicol O-acetyltransferase CatII CHLORAMPHENICOL
contig00013 98927 99400 dfrA7 0/0 100.0 100.0 NG_047737.1 trimethoprim-resistant dihydrofolate reductase DfrA7 TRIMETHOPRIM
contig00083 757 1413 qnrS1 0/0 100.0 100.0 NG_050543.1 quinolone resistance pentapeptide repeat protein QnrS1 QUINOLONE
contig00013 99971 100730 sul1 0/0 91.8 100.0 NG_048089.1 sulfonamide-resistant dihydropteroate synthase Sul1 SULFONAMIDE
contig00095 1707 2522 sul2 0/0 100.0 99.9 NG_048118.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
contig00100 804 2003 tet(A) 0/0 100.0 100.0 NG_048154.1 tetracycline efflux MFS transporter Tet(A) TETRACYCLINE
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00050 6197 7390 ACRA 0/0 100.0 99.9 MEG_399 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRA NA
contig00050 3025 6174 ACRB 0/0 100.0 99.4 MEG_401 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRB NA
contig00037 11080 14193 ACRD 0/0 100.0 99.3 MEG_407 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:ACRD NA
contig00009 116839 117995 ACRE 0/0 99.9 99.0 MEG_408 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRE NA
contig00009 118008 121112 ACRF 0/0 100.0 99.0 MEG_409 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRF NA
contig00009 115778 116440 ACRS 0/0 100.0 99.1 MEG_415 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:ACRS NA
contig00018 3404 4561 AMPH 0/0 100.0 98.9 MEG_729 Drugs:betalactams:Penicillin_binding_protein:AMPH NA
contig00095 843 1670 APH3-DPRIME 0/0 100.0 100.0 MEG_1019 Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH3-DPRIME NA
contig00095 7 843 APH6 0/0 100.0 100.0 MEG_1086 Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH6 NA
contig00003 152985 154837 ASMA 0/0 100.0 97.2 MEG_1180 Drugs:Multi-drug_resistance:Multi-drug_RND_efflux_regulator:ASMA NA
contig00005 65864 66685 BACA 0/0 100.0 99.6 MEG_1189 Drugs:Bacitracin:Undecaprenyl_pyrophosphate_phosphatase:BACA NA
contig00003 129600 130322 BAER 0/0 100.0 100.0 MEG_1192 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_regulator:BAER NA
contig00003 130319 131722 BAES 0/0 100.0 100.0 MEG_1193 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_regulator:BAES NA
contig00003 16903 18093 BCR 0/0 100.0 100.0 MEG_1210 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:BCR NA
contig00002 45251 46384 BLAEC 0/0 100.0 98.6 MEG_1282 Drugs:betalactams:Class_C_betalactamases:BLAEC NA
contig00013 92233 92903 CATA 0/0 100.0 100.0 MEG_1593 Drugs:Phenicol:Chloramphenicol_acetyltransferases:CATA NA
contig00130 91 732 CATA 0/0 100.0 100.0 MEG_1568 Drugs:Phenicol:Chloramphenicol_acetyltransferases:CATA NA
contig00022 61220 61918 CPXAR 0/0 100.0 99.9 MEG_2118 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR NA
contig00022 61915 63288 CPXAR 0/0 100.0 99.5 MEG_2121 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR NA
contig00011 15273 15905 CRP 0/0 100.0 99.4 MEG_2132 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CRP NA
contig00040 37472 38412 CTX 0/0 99.8 91.8 MEG_2435 Drugs:betalactams:Class_A_betalactamases:CTX NA
contig00106 428 1316 CTX 0/0 100.0 95.4 MEG_2430 Drugs:betalactams:Class_A_betalactamases:CTX NA
contig00125 96 939 CTX 0/0 94.9 99.6 MEG_2430 Drugs:betalactams:Class_A_betalactamases:CTX NA
contig00013 98927 99400 DFRA 0/0 100.0 100.0 MEG_2548 Drugs:Trimethoprim:Dihydrofolate_reductase:DFRA NA
contig00068 8239 9411 EMRA 0/0 100.0 99.6 MEG_2722 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRA NA
contig00068 9428 10966 EMRB 0/0 100.0 100.0 MEG_2725 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRB NA
contig00038 37633 38823 EMRD 0/0 100.0 99.8 MEG_2729 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRD NA
contig00015 65145 66308 EMRK 0/0 100.0 99.9 MEG_2732 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRK NA
contig00068 7582 8112 EMRR 0/0 100.0 100.0 MEG_2734 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_regulator:EMRR NA
contig00015 63607 65145 EMRY 0/0 100.0 99.1 MEG_2736 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRY NA
contig00019 17535 19178 EPTA 0/0 100.0 99.8 MEG_2739 Drugs:Cationic_antimicrobial_peptides:Lipid_A_modification:EPTA NA
contig00015 67343 70936 EVGS 0/0 100.0 99.9 MEG_2870 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_regulator:EVGS NA
contig00023 31846 32574 GADW 0/0 100.0 100.0 MEG_3081 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:GADW NA
contig00023 30654 31478 GADX 0/0 100.0 99.9 MEG_3083 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:GADX NA
contig00024 38183 38596 HNS 0/0 100.0 99.0 MEG_3271 Drugs:Multi-drug_resistance:Multi-drug_RND_efflux_pumps:HNS NA
contig00062 8065 8742 KDPE 0/0 100.0 99.1 MEG_3448 Drugs:Aminoglycosides:Aminoglycoside_efflux_pumps:KDPE NA
contig00046 3015 3404 MARA 0/0 100.0 100.0 MEG_3662 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:MARA NA
contig00046 2567 3001 MARR 0/0 100.0 97.5 MEG_3663 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:MARR NA
contig00020 26708 27940 MDFA 0/0 100.0 99.4 MEG_3737 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDFA NA
contig00003 139335 140582 MDTA 0/0 100.0 100.0 MEG_3746 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTA NA
contig00003 136213 139335 MDTB 0/0 100.0 99.8 MEG_3747 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTB NA
contig00003 133135 136212 MDTC 0/0 100.0 99.9 MEG_3749 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTC NA
contig00023 36075 37232 MDTE 0/0 100.0 100.0 MEG_3751 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTE NA
contig00023 32937 36050 MDTF 0/0 100.0 100.0 MEG_3752 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTF NA
contig00007 121966 123192 MDTG 0/0 100.0 99.5 MEG_3754 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDTG NA
contig00007 112127 113335 MDTH 0/0 100.0 98.3 MEG_3755 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDTH NA
contig00001 45101 45430 MDTI 0/0 100.0 100.0 MEG_3756 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:MDTI NA
contig00001 45417 45782 MDTJ 0/0 100.0 99.5 MEG_3757 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:MDTJ NA
contig00001 115630 117003 MDTK 0/0 100.0 98.9 MEG_3759 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MATE_efflux_pumps:MDTK NA
contig00055 5685 6917 MDTM 0/0 100.0 96.3 MEG_3761 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDTM NA
contig00019 48710 49741 MDTN 0/0 100.0 99.9 MEG_3763 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTN NA
contig00019 49741 51792 MDTO 0/0 100.0 99.1 MEG_3764 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTO NA
contig00019 51789 53255 MDTP 0/0 100.0 100.0 MEG_3765 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTP NA
contig00006 9600 10076 MPHB 0/0 100.0 98.3 MEG_4033 Drugs:MLS:Macrolide_phosphotransferases:MPHB NA
contig00004 87355 89103 MSBA 0/0 100.0 100.0 MEG_4061 Drugs:Multi-drug_resistance:Multi-drug_ABC_efflux_pumps:MSBA NA
contig00070 2032 2364 MVRC 0/0 100.0 91.9 MEG_4103 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:MVRC NA
contig00017 31036 32937 PBP2 0/0 100.0 99.4 MEG_5400 Drugs:betalactams:Penicillin_binding_protein:PBP2 NA
contig00040 28343 29647 PBP4B 0/0 100.0 99.2 MEG_5409 Drugs:betalactams:Penicillin_binding_protein:PBP4B NA
contig00012 61747 62715 PMRF 0/0 100.0 99.6 MEG_5801 Drugs:Cationic_antimicrobial_peptides:Lipid_A_modification:PMRF NA
contig00083 757 1413 QNRS 0/0 100.0 100.0 MEG_6020 Drugs:Fluoroquinolones:Quinolone_resistance_protein_Qnr:QNRS NA
contig00027 21725 22594 ROBA 0/0 100.0 99.0 MEG_6082 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:ROBA NA
contig00019 75097 75419 SOXS 0/0 99.7 99.7 MEG_6551 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_resistance_regulator:SOXS NA
contig00013 99884 100730 SULI 0/0 91.4 100.0 MEG_6616 Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULI NA
contig00095 1707 2522 SULII 0/0 100.0 100.0 MEG_6618 Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULII NA
contig00112 512 1757 TEM 0/0 98.3 99.4 MEG_6875 Drugs:betalactams:Class_A_betalactamases:TEM NA
contig00100 729 2003 TETA 0/0 100.0 100.0 MEG_7024 Drugs:Tetracyclines:Tetracycline_resistance_MFS_efflux_pumps:TETA NA
contig00012 1996 3639 YOGI 0/0 100.0 99.8 MEG_7842 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_ABC_efflux_pumps:YOGI NA
ID030II
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00035 2231 3034 aph(3’’)-Ib_5 0/0 100 100.0 AF321551 aph(3’’)-Ib Streptomycin
contig00035 3034 3870 aph(6)-Id_1 0/0 100 99.9 M28829 aph(6)-Id Streptomycin
contig00043 43104 43979 blaCTX-M-15_1 0/0 100 100.0 AY044436 blaCTX-M-15 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00014 109 969 blaTEM-1B_1 0/0 100 100.0 AY458016 blaTEM-1B Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin
contig00068 7624 8097 dfrA5_1 0/0 100 100.0 X12868 dfrA5 Trimethoprim
contig00040 32646 33878 mdf(A)_1 0/0 100 98.0 Y08743 mdf(A)
contig00035 8407 9328 mph(A)_2 1/1 100 99.6 U36578 mph(A) Erythromycin, Azithromycin, Spiramycin, Telithromycin
contig00068 6260 7126 sul1_5 0/0 100 99.9 EU780013 sul1 Sulfamethoxazole
contig00035 1355 2170 sul2_2 0/0 100 100.0 AY034138 sul2 Sulfamethoxazole
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00029 33646 36795 acrB 0/0 100.0 99.0 U00096.3:484403-481253 Protein subunit of AcrA-AcrB-TolC multidrug efflux complex. AcrB functions as a herterotrimer which forms the inner membrane component and is primarily responsible for substrate recognition and energy transduction by acting as a drug/proton antiporter. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00018 43114 46227 acrD 0/0 100.0 98.8 AP009048.1:2586250-2589364 AcrD is an aminoglycoside efflux pump expressed in E. coli. Its expression can be induced by indole and is regulated by baeRS and cpxAR. aminoglycoside
contig00001 337724 338881 acrE 0/0 100.0 97.5 U00096:3413863-3415021 AcrE is a membrane fusion protein similar to AcrA. cephalosporin, cephamycin, fluoroquinolone, penam
contig00001 338893 341997 acrF 0/0 100.0 97.8 U00096:3415032-3418137 AcrF is a inner membrane transporter similar to AcrB. cephalosporin, cephamycin, fluoroquinolone, penam
contig00001 336663 337325 acrS 0/0 100.0 98.0 U00096:3413465-3412802 AcrS is a repressor of the AcrAB efflux complex and is associated with the expression of AcrEF. AcrS is believed to regulate a switch between AcrAB and AcrEF efflux. cephalosporin, cephamycin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00035 2231 3034 APH(3’’)-Ib 0/0 100.0 99.8 AF313472:15593-16397 APH(3’’)-Ib is an aminoglycoside phosphotransferase encoded by plasmids transposons integrative conjugative elements and chromosomes in Enterobacteriaceae and Pseudomonas spp. aminoglycoside
contig00035 3034 3870 APH(6)-Id 0/0 100.0 99.8 AF024602:3155-3992 APH(6)-Id is an aminoglycoside phosphotransferase encoded by plasmids integrative conjugative elements and chromosomal genomic islands in K. pneumoniae Salmonella spp. E. coli Shigella flexneri Providencia alcalifaciens Pseudomonas spp. V. cholerae Edwardsiella tarda Pasteurella multocida and Aeromonas bestiarum aminoglycoside
contig00001 137439 138258 bacA 0/0 99.8 97.4 U00096.3:3204131-3203309 The bacA gene product (BacA) recycles undecaprenyl pyrophosphate during cell wall biosynthesis which confers resistance to bacitracin. peptide
contig00010 20599 21321 baeR 0/0 100.0 100.0 AP009048.1:2166412-2167135 BaeR is a response regulator that promotes the expression of MdtABC and AcrD efflux complexes. aminocoumarin, aminoglycoside
contig00010 19199 20602 baeS 0/0 100.0 100.0 AP009048:2165012-2166416 BaeS is a sensor kinase in the BaeSR regulatory system. While it phosphorylates BaeR to increase its activity BaeS is not necessary for overexpressed BaeR to confer resistance. aminocoumarin, aminoglycoside
contig00015 63847 65220 cpxA 0/0 100.0 98.3 BA000007.3:4905062-4903688 CpxA is a membrane-localized sensor kinase that is activated by envelope stress. It starts a kinase cascade that activates CpxR which promotes efflux complex expression. aminocoumarin, aminoglycoside
contig00020 15003 15635 CRP 0/0 100.0 98.9 AP009048.1:4154296-4153663 CRP is a global regulator that represses MdtEF multidrug efflux pump expression. fluoroquinolone, macrolide, penam
contig00043 43104 43979 CTX-M-15 0/0 100.0 100.0 AY044436:1435-2311 CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00068 7624 8097 dfrA5 0/0 100.0 100.0 DQ278190:0-474 dfrA5 is an integron-encoded dihydrofolate reductase found in Vibrio cholerae diaminopyrimidine
contig00004 23051 24223 emrA 0/0 100.0 97.4 AP009048:2810082-2811255 EmrA is a membrane fusion protein providing an efflux pathway with EmrB and TolC between the inner and outer membranes of E. coli a Gram-negative bacterium. fluoroquinolone
contig00004 24240 25778 emrB 0/0 100.0 98.2 U00096:2812615-2814154 emrB is a translocase in the emrB -TolC efflux protein in E. coli. It recognizes substrates including carbonyl cyanide m-chlorophenylhydrazone (CCCP) nalidixic acid and thioloactomycin. fluoroquinolone
contig00037 19693 20748 emrK 0/0 100.0 98.4 D78168:536-1592 emrK is a membrane fusion protein that is a homolog of EmrA. Together with the inner membrane transporter EmrY and the outer membrane channel TolC it mediates multidrug efflux. tetracycline
contig00004 22394 22924 emrR 0/0 100.0 99.8 U00096.3:2810769-2811300 EmrR is a negative regulator for the EmrAB-TolC multidrug efflux pump in E. coli. Mutations lead to EmrAB-TolC overexpression. fluoroquinolone
contig00037 18155 19693 emrY 0/0 100.0 97.5 D78168:1591-3130 emrY is a multidrug transport that moves substrates across the inner membrane of the Gram-negative E. coli. It is a homolog of emrB. tetracycline
contig00005 116669 118312 eptA 0/0 100.0 99.2 AP009048:4340268-4338624 PmrC mediates the modification of Lipid A by the addition of 4-amino-4-deoxy-L-arabinose (L-Ara4N) and phosphoethanolamine resulting in a less negative cell membrane and decreased binding of polymyxin B. peptide
contig00029 36818 38011 Escherichia_coli_acrA 0/0 100.0 99.1 U00096.3:485619-484425 AcrA is a subunit of the AcrAB-TolC multidrug efflux system that in E. coli. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00009 130218 131351 Escherichia_coli_ampC 0/0 100.0 98.1 U00096.3:4378944-4377810 A class C ampC beta-lactamase (cephalosporinase) enzyme described in Escherichia coli shown clinically to confer resistance to penicillin-like and cephalosporin-class antibiotics. cephalosporin, penam
contig00006 54664 55821 Escherichia_coli_ampH 0/0 100.0 98.5 AP012030.1:396711-395553 AmpH is a class C ampC-like beta-lactamase and penicillin-binding protein identified in Escherichia coli. cephalosporin, penam
contig00040 32646 33878 Escherichia_coli_mdfA 0/0 100.0 96.5 JQ394987:0-1233 Multidrug efflux pump in E. coli. This multidrug efflux system was originally identified as the Cmr/CmlA chloramphenicol exporter. benzalkonium_chloride, rhodamine, tetracycline
contig00037 21272 21886 evgA 0/0 100.0 99.5 BA000007.3:3212025-3212640 EvgA when phosphorylated is a positive regulator for efflux protein complexes emrKY and mdtEF. While usually phosphorylated in a EvgS dependent manner it can be phosphorylated in the absence of EvgS when overexpressed. fluoroquinolone, macrolide, penam, tetracycline
contig00037 21891 25484 evgS 0/0 100.0 96.7 U00096:2484373-2487967 EvgS is a sensor protein that phosphorylates the regulatory protein EvgA. evgS corresponds to 1 locus in Pseudomonas aeruginosa PAO1 and 1 locus in Pseudomonas aeruginosa LESB58. fluoroquinolone, macrolide, penam, tetracycline
contig00011 28386 29114 gadW 0/0 100.0 95.5 CP015085.1:2552440-2551711 GadW is an AraC-family regulator that promotes mdtEF expression to confer multidrug resistance. GadW inhibits GadX-dependent activation. GadW clearly represses gadX and in situations where GadX is missing activates gadA and gadBC. fluoroquinolone, macrolide, penam
contig00011 27193 28017 gadX 0/0 100.0 94.3 AP009048.1:3974604-3975429 GadX is an AraC-family regulator that promotes mdtEF expression to confer multidrug resistance. fluoroquinolone, macrolide, penam
contig00030 53590 54003 H-NS 0/0 100.0 99.5 BA000007.3:1738104-1737690 H-NS is a histone-like protein involved in global gene regulation in Gram-negative bacteria. It is a repressor of the membrane fusion protein genes acrE mdtE and emrK as well as nearby genes of many RND-type multidrug exporters. cephalosporin, cephamycin, fluoroquinolone, macrolide, penam, tetracycline
contig00057 7766 8441 kdpE 0/0 99.7 95.7 U00096.3:721733-721055 kdpE is a transcriptional activator that is part of the two-component system KdpD/KdpE that is studied for its regulatory role in potassium transport and has been identified as an adaptive regulator involved in the virulence and intracellular survival of pathogenic bacteria. kdpE regulates a range of virulence loci through direct promoter binding. aminoglycoside
contig00013 51209 51592 marA 0/0 100.0 99.5 AP009048.1:1621287-1621671 In the presence of antibiotic stress E. coli overexpresses the global activator protein MarA which besides inducing MDR efflux pump AcrAB also down- regulates synthesis of the porin OmpF. carbapenem, cephalosporin, cephamycin, fluoroquinolone, glycylcycline, monobactam, penam, penem, phenicol, rifamycin, tetracycline, triclosan
contig00010 10339 11586 mdtA 0/0 100.0 100.0 U00096:2154015-2155263 MdtA is the membrane fusion protein of the multidrug efflux complex mdtABC. aminocoumarin
contig00010 11586 14708 mdtB 0/0 100.0 99.8 U00096:2155262-2158385 MdtB is a transporter that forms a heteromultimer complex with MdtC to form a multidrug transporter. MdtBC is part of the MdtABC-TolC efflux complex. aminocoumarin
contig00010 14709 17786 mdtC 0/0 100.0 99.8 U00096:2158385-2161463 MdtC is a transporter that forms a heteromultimer complex with MdtB to form a multidrug transporter. MdtBC is part of the MdtABC-TolC efflux complex. In the absence of MdtB MdtC can form a homomultimer complex that results in a functioning efflux complex with a narrower drug specificity. mdtC corresponds to 3 loci in Pseudomonas aeruginosa PAO1 (gene name: muxC/muxB) and 3 loci in Pseudomonas aeruginosa LESB58. aminocoumarin
contig00011 32615 33772 mdtE 0/0 100.0 98.5 AP009048.1:3981183-3980025 MdtE is the membrane fusion protein of the MdtEF multidrug efflux complex. It shares 70% sequence similarity with AcrA. fluoroquinolone, macrolide, penam
contig00011 29477 32590 mdtF 0/0 100.0 98.5 U00096:3660413-3663527 MdtF is the multidrug inner membrane transporter for the MdtEF-TolC efflux complex. fluoroquinolone, macrolide, penam
contig00055 19854 21081 mdtG 1/1 100.0 97.6 CP000800.1:1192954-1191727 The MdtG protein also named YceE appears to be a member of the major facilitator superfamily of transporters and it has been reported when overexpressed to increase fosfomycin and deoxycholate resistances. mdtG is a member of the marA-soxS-rob regulon. fosfomycin
contig00055 29712 30920 mdtH 0/0 100.0 98.3 U00096:1125326-1124117 Multidrug resistance protein MdtH fluoroquinolone
contig00063 259 1491 mdtM 0/0 100.0 96.3 U00096.3:4568519-4567286 Multidrug resistance protein MdtM acridine_dye, fluoroquinolone, lincosamide, nucleoside, phenicol
contig00005 93049 94080 mdtN 0/0 100.0 96.9 AP009048.1:4307588-4306556 Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride. acridine_dye, nucleoside
contig00005 90998 93049 mdtO 0/0 100.0 96.4 AP009048.1:4306557-4304505 Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride acridine_dye, nucleoside
contig00005 89535 91001 mdtP 0/0 100.0 97.6 AP009048.1:4304509-4303042 Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride acridine_dye, nucleoside
contig00035 8423 9328 mphA 0/0 100.0 99.9 D16251.1:2531-1625 The mphA gene encodes for resistance enzyme MPH(2’)-I which preferentially inactivate 14-membered macrolides (e.g.erythromycin telithromycin roxithromycin) over 16-membered macrolides (e.g.tylosin spiramycin). It phosphorylates macrolides at 2’-OH hydroxyl of desosamine sugar of macrolides in a GTP-dependent manner. macrolide
contig00018 21933 22407 mphB 0/0 99.6 96.6 AE005174.2:3397370-3397847 The mphB gene encodes for MPH(2’)-II. This enzymes phosphorylates 14-membered and 16-membered macrolides. It phosphorylates macrolides in GTP- dependent manner at 2’-OH hydroxyl of desosamine sugar of macrolides. macrolide
contig00054 3895 5643 msbA 0/0 100.0 98.7 U00096.3:966620-968369 MsbA is a multidrug resistance transporter homolog from E. coli and belongs to a superfamily of transporters that contain an adenosine triphosphate (ATP) binding cassette (ABC) which is also called a nucleotide-binding domain (NBD). MsbA is a member of the MDR-ABC transporter group by sequence homology. MsbA transports lipid A a major component of the bacterial outer cell membrane and is the only bacterial ABC transporter that is essential for cell viability. nitroimidazole
contig00019 5885 6853 pmrF 0/0 100.0 98.7 U00096:2367070-2368039 PmrF is required for the synthesis and transfer of 4-amino-4-deoxy-L-arabinose (Ara4N) to Lipid A which allows gram-negative bacteria to resist the antimicrobial activity of cationic antimicrobial peptides and antibiotics such as polymyxin. pmrF corresponds to 1 locus in Pseudomonas aeruginosa PAO1 and 1 locus in Pseudomonas aeruginosa LESB58. peptide
contig00068 6260 7099 sul1 0/0 100.0 100.0 JF969163:1053-1893 Sul1 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria. It is linked to other resistance genes of class 1 integrons. sulfonamide
contig00035 1355 2170 sul2 0/0 100.0 100.0 AY055428.1:21084-20268 Sul2 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria usually found on small plasmids. sulfonamide
contig00014 109 969 TEM-1 0/0 100.0 99.9 AL513383:161910-162771 TEM-1 is a broad-spectrum beta-lactamase found in many Gram-negative bacteria. Confers resistance to penicillins and first generation cephalosphorins. cephalosporin, monobactam, penam, penem
contig00001 113927 115414 tolC 0/0 100.0 98.3 FJ768952:0-1488 TolC is a protein subunit of many multidrug efflux complexes in Gram negative bacteria. It is an outer membrane efflux protein and is constitutively open. Regulation of efflux activity is often at its periplasmic entrance by other components of the efflux complex. aminocoumarin, aminoglycoside, carbapenem, cephalosporin, cephamycin, fluoroquinolone, glycylcycline, macrolide, penam, penem, peptide, phenicol, rifamycin, tetracycline, triclosan
contig00023 30722 31888 ugd 0/0 100.0 99.9 U00096:2099613-2098446 PmrE is required for the synthesis and transfer of 4-amino-4-deoxy-L-arabinose (Ara4N) to Lipid A which allows gram-negative bacteria to resist the antimicrobial activity of cationic antimicrobial peptides and antibiotics such as polymyxin peptide
contig00025 25564 27207 yojI 0/0 100.0 96.6 U00096.3:2308615-2306971 YojI mediates resistance to the peptide antibiotic microcin J25 when it is expressed from a multicopy vector. YojI is capable of pumping out microcin molecules. The outer membrane protein TolC in addition to YojI is required for export of microcin J25 out of the cell. Microcin J25 is thus the first known substrate for YojI. peptide
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00035 2231 3034 (AGly)strA 0/0 100 99.9 AB366441:22458-23261 (AGly)strA NA
contig00035 3034 3870 (AGly)strB 0/0 100 99.9 FJ474091:264-1100 (AGly)strB NA
contig00009 130218 131351 (Bla)AmpC2_Ecoli 0/0 100 98.1 CP002970:332756-333889 (Bla)AmpC2_Ecoli NA
contig00006 54664 55821 (Bla)ampH_Ecoli 0/0 100 98.5 AP012030:395554-396711 (Bla)ampH_Ecoli NA
contig00043 43104 43979 (Bla)blaCTX-M-15 0/0 100 100.0 JQ686199:261-1136 (Bla)blaCTX-M-15 NA
contig00014 109 969 (Bla)blaTEM-105 0/0 100 99.9 AF516720:215-1075 (Bla)blaTEM-105 NA
contig00012 19082 20983 (Bla)Penicillin_Binding_Protein_Ecoli 0/0 100 99.0 CP002291:664439-666340 (Bla)Penicillin_Binding_Protein_Ecoli NA
contig00035 8423 9328 (MLS)mph(A) 0/0 100 99.9 DQ445270:1626-2531 (MLS)mph(A) NA
contig00068 6260 7099 (Sul)sul1 0/0 100 100.0 AF071413:6700-7539 (Sul)sul1 NA
contig00035 1355 2170 (Sul)sul2 0/0 100 100.0 EU360945:1617-2432 (Sul)sul2 NA
contig00068 7624 8097 (Tmt)dfrA5 0/0 100 100.0 X12868:1306-1779 (Tmt)dfrA5 NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00035 2207 3034 aph(3’’)-Ib 0/0 100 100.0 NG_056002.2 aminoglycoside O-phosphotransferase APH(3’’)-Ib STREPTOMYCIN
contig00035 3034 3870 aph(6)-Id 0/0 100 100.0 NG_047466.1 aminoglycoside O-phosphotransferase APH(6)-Id STREPTOMYCIN
contig00043 43104 43979 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00009 130218 131351 blaEC-8 0/0 100 99.8 NG_049086.1 cephalosporin-hydrolyzing class C beta-lactamase EC-8 CEPHALOSPORIN
contig00014 109 969 blaTEM-1 0/0 100 100.0 NG_050145.1 class A broad-spectrum beta-lactamase TEM-1 BETA-LACTAM
contig00068 7624 8097 dfrA5 0/0 100 100.0 NG_051699.1 trimethoprim-resistant dihydrofolate reductase DfrA5 TRIMETHOPRIM
contig00035 8407 9328 mph(A) 1/1 100 99.6 NG_047986.1 Mph(A) family macrolide 2’-phosphotransferase MACROLIDE
contig00068 6260 7099 sul1 0/0 100 100.0 NG_048082.1 sulfonamide-resistant dihydropteroate synthase Sul1 SULFONAMIDE
contig00035 1355 2170 sul2 0/0 100 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00029 36818 38011 ACRA 0/0 100.0 99.1 MEG_399 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRA NA
contig00029 33646 36795 ACRB 0/0 100.0 99.0 MEG_401 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRB NA
contig00018 43114 46227 ACRD 0/0 100.0 98.8 MEG_407 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:ACRD NA
contig00001 337724 338881 ACRE 0/0 100.0 97.5 MEG_408 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRE NA
contig00001 338893 341997 ACRF 0/0 100.0 97.8 MEG_409 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRF NA
contig00001 336663 337325 ACRS 0/0 100.0 98.0 MEG_415 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:ACRS NA
contig00006 54664 55821 AMPH 0/0 100.0 98.5 MEG_729 Drugs:betalactams:Penicillin_binding_protein:AMPH NA
contig00035 2207 3034 APH3-DPRIME 0/0 100.0 100.0 MEG_1019 Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH3-DPRIME NA
contig00035 3034 3870 APH6 0/0 100.0 100.0 MEG_1084 Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH6 NA
contig00023 71669 73522 ASMA 0/0 100.0 97.7 MEG_1180 Drugs:Multi-drug_resistance:Multi-drug_RND_efflux_regulator:ASMA NA
contig00001 137439 138258 BACA 0/0 99.8 97.9 MEG_1189 Drugs:Bacitracin:Undecaprenyl_pyrophosphate_phosphatase:BACA NA
contig00010 20599 21321 BAER 0/0 100.0 100.0 MEG_1192 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_regulator:BAER NA
contig00010 19199 20602 BAES 0/0 100.0 100.0 MEG_1193 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_regulator:BAES NA
contig00010 132693 133883 BCR 0/0 100.0 95.2 MEG_1210 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:BCR NA
contig00009 130218 131351 BLAEC 0/0 100.0 99.8 MEG_1278 Drugs:betalactams:Class_C_betalactamases:BLAEC NA
contig00015 63152 63850 CPXAR 0/0 100.0 99.6 MEG_2118 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR NA
contig00015 63847 65220 CPXAR 0/0 100.0 98.5 MEG_2121 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR NA
contig00020 15003 15635 CRP 0/0 100.0 98.9 MEG_2132 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CRP NA
contig00068 7624 8097 DFRA 0/0 100.0 100.0 MEG_2546 Drugs:Trimethoprim:Dihydrofolate_reductase:DFRA NA
contig00004 23051 24223 EMRA 0/0 100.0 97.4 MEG_2722 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRA NA
contig00004 24240 25778 EMRB 0/0 100.0 98.2 MEG_2725 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRB NA
contig00017 87286 88476 EMRD 0/0 100.0 97.3 MEG_2729 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRD NA
contig00037 19693 20856 EMRK 0/0 100.0 98.5 MEG_2732 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRK NA
contig00004 22394 22924 EMRR 0/0 100.0 99.8 MEG_2734 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_regulator:EMRR NA
contig00037 18155 19693 EMRY 0/0 100.0 97.5 MEG_2736 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRY NA
contig00005 116669 118312 EPTA 0/0 100.0 99.2 MEG_2739 Drugs:Cationic_antimicrobial_peptides:Lipid_A_modification:EPTA NA
contig00037 21891 25484 EVGS 0/0 100.0 97.3 MEG_2869 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_regulator:EVGS NA
contig00011 28386 29114 GADW 0/0 100.0 97.7 MEG_3081 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:GADW NA
contig00011 27193 28017 GADX 0/0 100.0 94.3 MEG_3083 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:GADX NA
contig00030 53590 54003 HNS 0/0 100.0 99.5 MEG_3271 Drugs:Multi-drug_resistance:Multi-drug_RND_efflux_pumps:HNS NA
contig00057 7766 8441 KDPE 0/0 99.7 95.7 MEG_3448 Drugs:Aminoglycosides:Aminoglycoside_efflux_pumps:KDPE NA
contig00013 51203 51592 MARA 0/0 100.0 99.5 MEG_3662 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:MARA NA
contig00013 50754 51188 MARR 0/0 100.0 98.2 MEG_3663 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:MARR NA
contig00040 32646 33878 MDFA 0/0 100.0 98.1 MEG_3737 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDFA NA
contig00010 10339 11586 MDTA 0/0 100.0 100.0 MEG_3746 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTA NA
contig00010 11586 14708 MDTB 0/0 100.0 99.8 MEG_3747 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTB NA
contig00010 14709 17786 MDTC 0/0 100.0 99.8 MEG_3749 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTC NA
contig00011 32615 33772 MDTE 0/0 100.0 98.5 MEG_3751 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTE NA
contig00011 29477 32590 MDTF 0/0 100.0 98.5 MEG_3752 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTF NA
contig00055 19854 21081 MDTG 1/1 100.0 98.0 MEG_3753 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDTG NA
contig00055 29712 30920 MDTH 0/0 100.0 98.3 MEG_3755 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDTH NA
contig00013 83513 83842 MDTI 0/0 100.0 99.7 MEG_3756 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:MDTI NA
contig00013 83829 84194 MDTJ 0/0 100.0 98.6 MEG_3757 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:MDTJ NA
contig00002 182433 183805 MDTK 0/0 99.9 98.4 MEG_3759 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MATE_efflux_pumps:MDTK NA
contig00063 259 1491 MDTM 0/0 100.0 96.3 MEG_3761 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDTM NA
contig00005 93049 94080 MDTN 0/0 100.0 96.9 MEG_3763 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTN NA
contig00005 90998 93049 MDTO 0/0 100.0 96.4 MEG_3764 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTO NA
contig00005 89535 91001 MDTP 0/0 100.0 97.6 MEG_3765 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTP NA
contig00035 8407 9328 MPHA 1/1 100.0 99.6 MEG_4030 Drugs:MLS:Macrolide_phosphotransferases:MPHA NA
contig00018 21933 22407 MPHB 0/0 99.6 96.6 MEG_4033 Drugs:MLS:Macrolide_phosphotransferases:MPHB NA
contig00054 3895 5643 MSBA 0/0 100.0 98.7 MEG_4061 Drugs:Multi-drug_resistance:Multi-drug_ABC_efflux_pumps:MSBA NA
contig00012 19082 20983 PBP2 0/0 100.0 99.0 MEG_5400 Drugs:betalactams:Penicillin_binding_protein:PBP2 NA
contig00019 5885 6853 PMRF 0/0 100.0 98.7 MEG_5801 Drugs:Cationic_antimicrobial_peptides:Lipid_A_modification:PMRF NA
contig00007 137016 137885 ROBA 0/0 100.0 99.0 MEG_6082 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:ROBA NA
contig00005 67570 67892 SOXS 0/0 99.7 98.1 MEG_6551 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_resistance_regulator:SOXS NA
contig00068 6133 7100 SULI 0/0 100.0 100.0 MEG_6615 Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULI NA
contig00035 1355 2170 SULII 0/0 100.0 100.0 MEG_6617 Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULII NA
contig00014 91 1336 TEM 0/0 98.3 99.3 MEG_6875 Drugs:betalactams:Class_A_betalactamases:TEM NA
contig00023 30722 31888 UGD 0/0 100.0 99.9 MEG_7328 Drugs:Cationic_antimicrobial_peptides:Lipid_A_modification:UGD NA
contig00025 25564 27207 YOGI 0/0 100.0 96.6 MEG_7842 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_ABC_efflux_pumps:YOGI NA
ID030I
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00049 43 903 aac(3)-IIa_1 0/0 100 99.8 X51534 aac(3)-IIa Gentamicin, Tobramycin
contig00125 1539 2138 aac(6’)-Ib-cr_1 0/0 100 100.0 DQ303918 aac(6’)-Ib-cr Ciprofloxacin
contig00161 8 844 aph(6)-Id_1 0/0 100 100.0 M28829 aph(6)-Id Streptomycin
contig00035 47292 48167 blaCTX-M-15_1 0/0 100 100.0 AY044436 blaCTX-M-15 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00125 578 1408 blaOXA-1_1 0/0 100 100.0 HQ170510 blaOXA-1 Amoxicillin, Amoxicillin+Clavulanic_acid, Ampicillin, Ampicillin+Clavulanic_acid, Cefepime, Piperacillin, Piperacillin+Tazobactam
contig00136 146 1006 blaTEM-1B_1 0/0 100 100.0 AY458016 blaTEM-1B Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin
contig00238 73 555 dfrA14_5 0/0 100 99.8 DQ388123 dfrA14 Trimethoprim
contig00096 33 506 dfrA17_1 0/0 100 100.0 FJ460238 dfrA17 Trimethoprim
contig00015 36477 37709 mdf(A)_1 0/0 100 97.9 Y08743 mdf(A)
contig00153 68 989 mph(A)_2 1/1 100 99.7 U36578 mph(A) Erythromycin, Azithromycin, Spiramycin, Telithromycin
contig00103 770 1975 tet(B)_2 0/0 100 100.0 AF326777 tet(B) Doxycycline, Tetracycline, Minocycline
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00049 43 903 AAC(3)-IIe 0/0 100.0 99.5 EU022315.1:0-861 AAC(3)-IIe is a plasmid-encoded aminoglycoside acetyltransferase in E. coli aminoglycoside
contig00125 1539 2138 AAC(6’)-Ib-cr 0/0 100.0 100.0 DQ303918:0-600 AAC(6’)-Ib-cr is an aminoglycoside acetyltransferase encoded by plasmids transposons integrons in Enterobacteriaceae. The aac(6’)-Ib-cr variant gene can induce resistance against aminoglycoside and fluoroquinolone simultaneously aminoglycoside, fluoroquinolone
contig00010 110280 113429 acrB 0/0 100.0 98.8 U00096.3:484403-481253 Protein subunit of AcrA-AcrB-TolC multidrug efflux complex. AcrB functions as a herterotrimer which forms the inner membrane component and is primarily responsible for substrate recognition and energy transduction by acting as a drug/proton antiporter. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00052 11373 14486 acrD 0/0 100.0 98.5 AP009048.1:2586250-2589364 AcrD is an aminoglycoside efflux pump expressed in E. coli. Its expression can be induced by indole and is regulated by baeRS and cpxAR. aminoglycoside
contig00019 71361 72518 acrE 0/0 100.0 98.7 U00096:3413863-3415021 AcrE is a membrane fusion protein similar to AcrA. cephalosporin, cephamycin, fluoroquinolone, penam
contig00019 72530 75634 acrF 0/0 100.0 96.5 U00096:3415032-3418137 AcrF is a inner membrane transporter similar to AcrB. cephalosporin, cephamycin, fluoroquinolone, penam
contig00019 70300 70962 acrS 0/0 100.0 98.3 U00096:3413465-3412802 AcrS is a repressor of the AcrAB efflux complex and is associated with the expression of AcrEF. AcrS is believed to regulate a switch between AcrAB and AcrEF efflux. cephalosporin, cephamycin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00161 8 844 APH(6)-Id 0/0 100.0 99.9 AF024602:3155-3992 APH(6)-Id is an aminoglycoside phosphotransferase encoded by plasmids integrative conjugative elements and chromosomal genomic islands in K. pneumoniae Salmonella spp. E. coli Shigella flexneri Providencia alcalifaciens Pseudomonas spp. V. cholerae Edwardsiella tarda Pasteurella multocida and Aeromonas bestiarum aminoglycoside
contig00002 83221 84042 bacA 0/0 100.0 100.0 U00096.3:3204131-3203309 The bacA gene product (BacA) recycles undecaprenyl pyrophosphate during cell wall biosynthesis which confers resistance to bacitracin. peptide
contig00011 46798 47519 baeR 0/0 99.9 96.7 AP009048.1:2166412-2167135 BaeR is a response regulator that promotes the expression of MdtABC and AcrD efflux complexes. aminocoumarin, aminoglycoside
contig00011 47516 48919 baeS 0/0 100.0 90.5 AP009048:2165012-2166416 BaeS is a sensor kinase in the BaeSR regulatory system. While it phosphorylates BaeR to increase its activity BaeS is not necessary for overexpressed BaeR to confer resistance. aminocoumarin, aminoglycoside
contig00006 107883 109250 cpxA 0/0 99.6 98.6 BA000007.3:4905062-4903688 CpxA is a membrane-localized sensor kinase that is activated by envelope stress. It starts a kinase cascade that activates CpxR which promotes efflux complex expression. aminocoumarin, aminoglycoside
contig00007 15383 16015 CRP 0/0 100.0 99.0 AP009048.1:4154296-4153663 CRP is a global regulator that represses MdtEF multidrug efflux pump expression. fluoroquinolone, macrolide, penam
contig00035 47292 48167 CTX-M-15 0/0 100.0 100.0 AY044436:1435-2311 CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00238 73 555 dfrA14 0/0 100.0 100.0 EU780012:2162-2645 dfrA14 is an integron-encoded dihydrofolate reductase found in Escherichia coli diaminopyrimidine
contig00096 33 506 dfrA17 0/0 100.0 100.0 DQ838665:0-474 dfrA17 is an integron-encoded dihydrofolate reductase found in Escherichia coli diaminopyrimidine
contig00075 13103 14275 emrA 0/0 100.0 98.1 AP009048:2810082-2811255 EmrA is a membrane fusion protein providing an efflux pathway with EmrB and TolC between the inner and outer membranes of E. coli a Gram-negative bacterium. fluoroquinolone
contig00075 14292 15830 emrB 0/0 100.0 98.1 U00096:2812615-2814154 emrB is a translocase in the emrB -TolC efflux protein in E. coli. It recognizes substrates including carbonyl cyanide m-chlorophenylhydrazone (CCCP) nalidixic acid and thioloactomycin. fluoroquinolone
contig00018 9515 10570 emrK 0/0 100.0 97.3 D78168:536-1592 emrK is a membrane fusion protein that is a homolog of EmrA. Together with the inner membrane transporter EmrY and the outer membrane channel TolC it mediates multidrug efflux. tetracycline
contig00075 12446 12976 emrR 0/0 100.0 98.5 U00096.3:2810769-2811300 EmrR is a negative regulator for the EmrAB-TolC multidrug efflux pump in E. coli. Mutations lead to EmrAB-TolC overexpression. fluoroquinolone
contig00018 7977 9515 emrY 0/0 100.0 97.7 D78168:1591-3130 emrY is a multidrug transport that moves substrates across the inner membrane of the Gram-negative E. coli. It is a homolog of emrB. tetracycline
contig00029 18381 20024 eptA 0/0 100.0 91.1 AP009048:4340268-4338624 PmrC mediates the modification of Lipid A by the addition of 4-amino-4-deoxy-L-arabinose (L-Ara4N) and phosphoethanolamine resulting in a less negative cell membrane and decreased binding of polymyxin B. peptide
contig00010 113452 114645 Escherichia_coli_acrA 0/0 100.0 99.2 U00096.3:485619-484425 AcrA is a subunit of the AcrAB-TolC multidrug efflux system that in E. coli. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00063 13152 14285 Escherichia_coli_ampC 0/0 100.0 98.0 U00096.3:4378944-4377810 A class C ampC beta-lactamase (cephalosporinase) enzyme described in Escherichia coli shown clinically to confer resistance to penicillin-like and cephalosporin-class antibiotics. cephalosporin, penam
contig00010 20363 21520 Escherichia_coli_ampH 0/0 100.0 97.2 AP012030.1:396711-395553 AmpH is a class C ampC-like beta-lactamase and penicillin-binding protein identified in Escherichia coli. cephalosporin, penam
contig00004 170097 170429 Escherichia_coli_emrE 0/0 100.0 92.2 Z11877.1:485-818 Member of the small MDR (multidrug resistance) family of transporters, in Escherichia coli this protein provides resistance against a number of positively charged compounds including ethidium bromide and erythromycin, proton-dependent secondary transporter which exchanges protons for compound translocation macrolide
contig00015 36477 37709 Escherichia_coli_mdfA 0/0 100.0 96.3 JQ394987:0-1233 Multidrug efflux pump in E. coli. This multidrug efflux system was originally identified as the Cmr/CmlA chloramphenicol exporter. benzalkonium_chloride, rhodamine, tetracycline
contig00018 11094 11708 evgA 0/0 100.0 100.0 BA000007.3:3212025-3212640 EvgA when phosphorylated is a positive regulator for efflux protein complexes emrKY and mdtEF. While usually phosphorylated in a EvgS dependent manner it can be phosphorylated in the absence of EvgS when overexpressed. fluoroquinolone, macrolide, penam, tetracycline
contig00018 11713 15306 evgS 0/0 100.0 99.4 U00096:2484373-2487967 EvgS is a sensor protein that phosphorylates the regulatory protein EvgA. evgS corresponds to 1 locus in Pseudomonas aeruginosa PAO1 and 1 locus in Pseudomonas aeruginosa LESB58. fluoroquinolone, macrolide, penam, tetracycline
contig00057 2058 2786 gadW 0/0 100.0 99.7 CP015085.1:2552440-2551711 GadW is an AraC-family regulator that promotes mdtEF expression to confer multidrug resistance. GadW inhibits GadX-dependent activation. GadW clearly represses gadX and in situations where GadX is missing activates gadA and gadBC. fluoroquinolone, macrolide, penam
contig00057 865 1689 gadX 0/0 100.0 93.8 AP009048.1:3974604-3975429 GadX is an AraC-family regulator that promotes mdtEF expression to confer multidrug resistance. fluoroquinolone, macrolide, penam
contig00055 22172 22585 H-NS 0/0 100.0 99.3 BA000007.3:1738104-1737690 H-NS is a histone-like protein involved in global gene regulation in Gram-negative bacteria. It is a repressor of the membrane fusion protein genes acrE mdtE and emrK as well as nearby genes of many RND-type multidrug exporters. cephalosporin, cephamycin, fluoroquinolone, macrolide, penam, tetracycline
contig00013 106139 106811 kdpE 0/0 99.3 95.8 U00096.3:721733-721055 kdpE is a transcriptional activator that is part of the two-component system KdpD/KdpE that is studied for its regulatory role in potassium transport and has been identified as an adaptive regulator involved in the virulence and intracellular survival of pathogenic bacteria. kdpE regulates a range of virulence loci through direct promoter binding. aminoglycoside
contig00047 8996 9379 marA 0/0 100.0 98.4 AP009048.1:1621287-1621671 In the presence of antibiotic stress E. coli overexpresses the global activator protein MarA which besides inducing MDR efflux pump AcrAB also down- regulates synthesis of the porin OmpF. carbapenem, cephalosporin, cephamycin, fluoroquinolone, glycylcycline, monobactam, penam, penem, phenicol, rifamycin, tetracycline, triclosan
contig00011 56532 57779 mdtA 0/0 100.0 95.8 U00096:2154015-2155263 MdtA is the membrane fusion protein of the multidrug efflux complex mdtABC. aminocoumarin
contig00011 53410 56532 mdtB 0/0 100.0 95.9 U00096:2155262-2158385 MdtB is a transporter that forms a heteromultimer complex with MdtC to form a multidrug transporter. MdtBC is part of the MdtABC-TolC efflux complex. aminocoumarin
contig00011 50332 53409 mdtC 0/0 100.0 93.9 U00096:2158385-2161463 MdtC is a transporter that forms a heteromultimer complex with MdtB to form a multidrug transporter. MdtBC is part of the MdtABC-TolC efflux complex. In the absence of MdtB MdtC can form a homomultimer complex that results in a functioning efflux complex with a narrower drug specificity. mdtC corresponds to 3 loci in Pseudomonas aeruginosa PAO1 (gene name: muxC/muxB) and 3 loci in Pseudomonas aeruginosa LESB58. aminocoumarin
contig00057 6287 7444 mdtE 0/0 100.0 98.5 AP009048.1:3981183-3980025 MdtE is the membrane fusion protein of the MdtEF multidrug efflux complex. It shares 70% sequence similarity with AcrA. fluoroquinolone, macrolide, penam
contig00057 3149 6262 mdtF 0/0 100.0 97.3 U00096:3660413-3663527 MdtF is the multidrug inner membrane transporter for the MdtEF-TolC efflux complex. fluoroquinolone, macrolide, penam
contig00005 145081 146307 mdtG 0/0 100.0 98.4 CP000800.1:1192954-1191727 The MdtG protein also named YceE appears to be a member of the major facilitator superfamily of transporters and it has been reported when overexpressed to increase fosfomycin and deoxycholate resistances. mdtG is a member of the marA-soxS-rob regulon. fosfomycin
contig00005 154938 156146 mdtH 0/0 100.0 98.0 U00096:1125326-1124117 Multidrug resistance protein MdtH fluoroquinolone
contig00058 18497 19528 mdtN 0/0 100.0 94.9 AP009048.1:4307588-4306556 Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride. acridine_dye, nucleoside
contig00058 16446 18497 mdtO 0/0 100.0 97.1 AP009048.1:4306557-4304505 Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride acridine_dye, nucleoside
contig00058 14983 16449 mdtP 0/0 100.0 97.7 AP009048.1:4304509-4303042 Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride acridine_dye, nucleoside
contig00153 68 973 mphA 0/0 100.0 100.0 D16251.1:2531-1625 The mphA gene encodes for resistance enzyme MPH(2’)-I which preferentially inactivate 14-membered macrolides (e.g.erythromycin telithromycin roxithromycin) over 16-membered macrolides (e.g.tylosin spiramycin). It phosphorylates macrolides at 2’-OH hydroxyl of desosamine sugar of macrolides in a GTP-dependent manner. macrolide
contig00005 18448 20196 msbA 0/0 100.0 98.1 U00096.3:966620-968369 MsbA is a multidrug resistance transporter homolog from E. coli and belongs to a superfamily of transporters that contain an adenosine triphosphate (ATP) binding cassette (ABC) which is also called a nucleotide-binding domain (NBD). MsbA is a member of the MDR-ABC transporter group by sequence homology. MsbA transports lipid A a major component of the bacterial outer cell membrane and is the only bacterial ABC transporter that is essential for cell viability. nitroimidazole
contig00125 578 1408 OXA-1 0/0 100.0 100.0 JN420336.1:2230-1399 OXA-1 is a beta-lactamase found in E. coli cephalosporin, penam
contig00008 43089 44057 pmrF 0/0 100.0 97.7 U00096:2367070-2368039 PmrF is required for the synthesis and transfer of 4-amino-4-deoxy-L-arabinose (Ara4N) to Lipid A which allows gram-negative bacteria to resist the antimicrobial activity of cationic antimicrobial peptides and antibiotics such as polymyxin. pmrF corresponds to 1 locus in Pseudomonas aeruginosa PAO1 and 1 locus in Pseudomonas aeruginosa LESB58. peptide
contig00136 146 1006 TEM-1 0/0 100.0 99.9 AL513383:161910-162771 TEM-1 is a broad-spectrum beta-lactamase found in many Gram-negative bacteria. Confers resistance to penicillins and first generation cephalosphorins. cephalosporin, monobactam, penam, penem
contig00103 770 1975 tet(B) 0/0 100.0 99.8 AB089595:0-1206 Tet(B) is a tetracycline efflux protein expressed in many Gram-negative bacteria. It confers resistance to tetracycline doxycycline and minocycline but not tigecycline. tetracycline
contig00002 106420 107907 tolC 0/0 100.0 100.0 FJ768952:0-1488 TolC is a protein subunit of many multidrug efflux complexes in Gram negative bacteria. It is an outer membrane efflux protein and is constitutively open. Regulation of efflux activity is often at its periplasmic entrance by other components of the efflux complex. aminocoumarin, aminoglycoside, carbapenem, cephalosporin, cephamycin, fluoroquinolone, glycylcycline, macrolide, penam, penem, peptide, phenicol, rifamycin, tetracycline, triclosan
contig00011 112160 113326 ugd 0/0 100.0 97.0 U00096:2099613-2098446 PmrE is required for the synthesis and transfer of 4-amino-4-deoxy-L-arabinose (Ara4N) to Lipid A which allows gram-negative bacteria to resist the antimicrobial activity of cationic antimicrobial peptides and antibiotics such as polymyxin peptide
contig00028 41468 43111 yojI 0/0 100.0 97.9 U00096.3:2308615-2306971 YojI mediates resistance to the peptide antibiotic microcin J25 when it is expressed from a multicopy vector. YojI is capable of pumping out microcin molecules. The outer membrane protein TolC in addition to YojI is required for export of microcin J25 out of the cell. Microcin J25 is thus the first known substrate for YojI. peptide
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00049 43 903 (AGly)aac3-IIa 0/0 100 99.8 X51534:91-951 (AGly)aac3-IIa NA
contig00161 8 844 (AGly)strB 0/0 100 100.0 FJ474091:264-1100 (AGly)strB NA
contig00063 13152 14285 (Bla)AmpC2_Ecoli 0/0 100 98.0 CP002970:332756-333889 (Bla)AmpC2_Ecoli NA
contig00010 20363 21520 (Bla)ampH_Ecoli 0/0 100 97.2 AP012030:395554-396711 (Bla)ampH_Ecoli NA
contig00035 47292 48167 (Bla)blaCTX-M-15 0/0 100 100.0 JQ686199:261-1136 (Bla)blaCTX-M-15 NA
contig00125 578 1408 (Bla)blaOXA-1 0/0 100 100.0 JQ682867:1-831 (Bla)blaOXA-1 NA
contig00136 146 1006 (Bla)blaTEM-105 0/0 100 99.9 AF516720:215-1075 (Bla)blaTEM-105 NA
contig00025 47337 49238 (Bla)Penicillin_Binding_Protein_Ecoli 0/0 100 98.5 CP002291:664439-666340 (Bla)Penicillin_Binding_Protein_Ecoli NA
contig00153 68 973 (MLS)mph(A) 0/0 100 100.0 DQ445270:1626-2531 (MLS)mph(A) NA
contig00103 770 1975 (Tet)tetB 0/0 100 99.7 AB089594:1-1206 (Tet)tetB NA
contig00238 73 546 (Tmt)dfrA14 0/0 100 99.8 GU726917:72-545 (Tmt)dfrA14 NA
contig00096 33 506 (Tmt)dfrA17 0/0 100 100.0 AB126604:98-571 (Tmt)dfrA17 NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00049 43 903 aac(3)-IIe 0/0 100 99.8 NG_047244.1 aminoglycoside N-acetyltransferase AAC(3)-IIe GENTAMICIN
contig00125 1539 2093 aac(6’)-Ib-D181Y 0/0 100 99.8 NG_067946.1 AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase AMIKACIN, KANAMYCIN, TOBRAMYCIN
contig00161 8 844 aph(6)-Id 0/0 100 100.0 NG_047464.1 aminoglycoside O-phosphotransferase APH(6)-Id STREPTOMYCIN
contig00035 47292 48167 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00063 13152 14285 blaEC-5 0/0 100 99.8 NG_049085.1 cephalosporin-hydrolyzing class C beta-lactamase EC-5 CEPHALOSPORIN
contig00125 578 1408 blaOXA-1 0/0 100 100.0 NG_049392.1 oxacillin-hydrolyzing class D beta-lactamase OXA-1 CEPHALOSPORIN
contig00136 146 1006 blaTEM-1 0/0 100 100.0 NG_050145.1 class A broad-spectrum beta-lactamase TEM-1 BETA-LACTAM
contig00238 73 546 dfrA14 0/0 100 100.0 NG_047696.1 trimethoprim-resistant dihydrofolate reductase DfrA14 TRIMETHOPRIM
contig00096 33 506 dfrA17 0/0 100 99.8 NG_047710.1 trimethoprim-resistant dihydrofolate reductase DfrA17 TRIMETHOPRIM
contig00153 68 989 mph(A) 1/1 100 99.7 NG_047986.1 Mph(A) family macrolide 2’-phosphotransferase MACROLIDE
contig00103 770 1975 tet(B) 0/0 100 100.0 NG_048163.1 tetracycline efflux MFS transporter Tet(B) TETRACYCLINE
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00049 43 903 AAC3 0/0 100.0 99.8 MEG_44 Drugs:Aminoglycosides:Aminoglycoside_N-acetyltransferases:AAC3 NA
contig00010 113452 114645 ACRA 0/0 100.0 99.2 MEG_399 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRA NA
contig00010 110280 113429 ACRB 0/0 100.0 98.8 MEG_401 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRB NA
contig00052 11373 14486 ACRD 0/0 100.0 98.5 MEG_407 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:ACRD NA
contig00019 71361 72518 ACRE 0/0 100.0 98.7 MEG_408 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRE NA
contig00019 72530 75634 ACRF 0/0 100.0 96.5 MEG_409 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRF NA
contig00019 70300 70962 ACRS 0/0 100.0 98.3 MEG_415 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:ACRS NA
contig00010 20363 21520 AMPH 0/0 100.0 97.2 MEG_729 Drugs:betalactams:Penicillin_binding_protein:AMPH NA
contig00161 8 844 APH6 0/0 100.0 100.0 MEG_1086 Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH6 NA
contig00011 69442 71294 ASMA 0/0 100.0 97.5 MEG_1180 Drugs:Multi-drug_resistance:Multi-drug_RND_efflux_regulator:ASMA NA
contig00002 83221 84042 BACA 0/0 100.0 100.0 MEG_1190 Drugs:Bacitracin:Undecaprenyl_pyrophosphate_phosphatase:BACA NA
contig00011 46798 47519 BAER 0/0 99.9 96.7 MEG_1192 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_regulator:BAER NA
contig00011 47516 48919 BAES 0/0 100.0 90.5 MEG_1193 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_regulator:BAES NA
contig00028 16810 18000 BCR 0/0 100.0 96.3 MEG_1210 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:BCR NA
contig00063 13152 14285 BLAEC 0/0 100.0 99.8 MEG_1275 Drugs:betalactams:Class_C_betalactamases:BLAEC NA
contig00006 107188 107886 CPXAR 0/0 100.0 97.8 MEG_2118 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR NA
contig00006 107883 109250 CPXAR 0/0 99.6 99.0 MEG_2121 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR NA
contig00007 15383 16015 CRP 0/0 100.0 99.0 MEG_2132 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CRP NA
contig00096 33 506 DFRA 0/0 100.0 100.0 MEG_2547 Drugs:Trimethoprim:Dihydrofolate_reductase:DFRA NA
contig00238 73 546 DFRA 0/0 100.0 100.0 MEG_2517 Drugs:Trimethoprim:Dihydrofolate_reductase:DFRA NA
contig00075 13103 14275 EMRA 0/0 100.0 98.1 MEG_2722 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRA NA
contig00075 14292 15830 EMRB 0/0 100.0 98.1 MEG_2725 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRB NA
contig00001 24362 25552 EMRD 0/0 100.0 97.7 MEG_2729 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRD NA
contig00018 9515 10678 EMRK 0/0 100.0 97.2 MEG_2732 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRK NA
contig00075 12446 12976 EMRR 0/0 100.0 98.5 MEG_2734 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_regulator:EMRR NA
contig00018 7977 9515 EMRY 0/0 100.0 97.8 MEG_2736 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRY NA
contig00029 18381 20024 EPTA 0/0 100.0 91.1 MEG_2739 Drugs:Cationic_antimicrobial_peptides:Lipid_A_modification:EPTA NA
contig00018 11713 15306 EVGS 0/0 100.0 99.4 MEG_2870 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_regulator:EVGS NA
contig00057 2058 2786 GADW 0/0 100.0 99.7 MEG_3082 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:GADW NA
contig00057 865 1689 GADX 0/0 100.0 93.8 MEG_3083 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:GADX NA
contig00055 22172 22585 HNS 0/0 100.0 99.3 MEG_3271 Drugs:Multi-drug_resistance:Multi-drug_RND_efflux_pumps:HNS NA
contig00013 106139 106811 KDPE 0/0 99.3 95.8 MEG_3448 Drugs:Aminoglycosides:Aminoglycoside_efflux_pumps:KDPE NA
contig00047 8996 9385 MARA 0/0 100.0 98.5 MEG_3662 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:MARA NA
contig00047 9400 9834 MARR 0/0 100.0 98.2 MEG_3663 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:MARR NA
contig00015 36477 37709 MDFA 0/0 100.0 98.0 MEG_3737 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDFA NA
contig00011 56532 57779 MDTA 0/0 100.0 95.8 MEG_3746 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTA NA
contig00011 53410 56532 MDTB 0/0 100.0 95.9 MEG_3747 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTB NA
contig00011 50332 53409 MDTC 0/0 100.0 93.9 MEG_3749 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTC NA
contig00057 6287 7444 MDTE 0/0 100.0 98.5 MEG_3751 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTE NA
contig00057 3149 6262 MDTF 0/0 100.0 97.3 MEG_3752 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTF NA
contig00005 145081 146307 MDTG 0/0 100.0 98.5 MEG_3753 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDTG NA
contig00005 154938 156146 MDTH 0/0 100.0 98.0 MEG_3755 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDTH NA
contig00053 23272 23601 MDTI 0/0 100.0 98.8 MEG_3756 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:MDTI NA
contig00053 23588 23953 MDTJ 0/0 100.0 97.5 MEG_3757 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:MDTJ NA
contig00020 1558 2930 MDTK 0/0 99.9 98.4 MEG_3759 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MATE_efflux_pumps:MDTK NA
contig00058 18497 19528 MDTN 0/0 100.0 94.9 MEG_3763 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTN NA
contig00058 16446 18497 MDTO 0/0 100.0 97.1 MEG_3764 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTO NA
contig00058 14983 16449 MDTP 0/0 100.0 97.7 MEG_3765 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTP NA
contig00153 68 989 MPHA 1/1 100.0 99.7 MEG_4030 Drugs:MLS:Macrolide_phosphotransferases:MPHA NA
contig00005 18448 20196 MSBA 0/0 100.0 98.1 MEG_4061 Drugs:Multi-drug_resistance:Multi-drug_ABC_efflux_pumps:MSBA NA
contig00004 170097 170429 MVRC 0/0 100.0 92.2 MEG_4103 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:MVRC NA
contig00125 578 1408 OXA 0/0 100.0 100.0 MEG_4980 Drugs:betalactams:Class_D_betalactamases:OXA NA
contig00025 47337 49238 PBP2 0/0 100.0 98.5 MEG_5400 Drugs:betalactams:Penicillin_binding_protein:PBP2 NA
contig00008 43089 44057 PMRF 0/0 100.0 97.7 MEG_5801 Drugs:Cationic_antimicrobial_peptides:Lipid_A_modification:PMRF NA
contig00009 44206 45075 ROBA 0/0 100.0 97.2 MEG_6082 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:ROBA NA
contig00017 13424 13746 SOXS 0/0 99.7 98.1 MEG_6551 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_resistance_regulator:SOXS NA
contig00136 128 1373 TEM 0/0 98.3 99.4 MEG_6875 Drugs:betalactams:Class_A_betalactamases:TEM NA
contig00103 770 1975 TETB 0/0 100.0 100.0 MEG_7052 Drugs:Tetracyclines:Tetracycline_resistance_MFS_efflux_pumps:TETB NA
contig00103 2769 3185 TETD 0/0 100.0 100.0 MEG_7070 Drugs:Tetracyclines:Tetracycline_resistance_MFS_efflux_pumps:TETD NA
contig00011 112160 113326 UGD 0/0 100.0 97.0 MEG_7328 Drugs:Cationic_antimicrobial_peptides:Lipid_A_modification:UGD NA
contig00028 41468 43111 YOGI 0/0 100.0 97.9 MEG_7842 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_ABC_efflux_pumps:YOGI NA
ID042
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00036 35448 36323 blaCTX-M-55_1 0/0 100 100.0 DQ810789 blaCTX-M-55 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00017 101270 102502 mdf(A)_1 0/0 100 97.9 Y08743 mdf(A)
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00010 111532 114681 acrB 0/0 100.0 98.8 U00096.3:484403-481253 Protein subunit of AcrA-AcrB-TolC multidrug efflux complex. AcrB functions as a herterotrimer which forms the inner membrane component and is primarily responsible for substrate recognition and energy transduction by acting as a drug/proton antiporter. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00015 117169 120282 acrD 0/0 100.0 98.5 AP009048.1:2586250-2589364 AcrD is an aminoglycoside efflux pump expressed in E. coli. Its expression can be induced by indole and is regulated by baeRS and cpxAR. aminoglycoside
contig00012 144843 146000 acrE 0/0 100.0 98.7 U00096:3413863-3415021 AcrE is a membrane fusion protein similar to AcrA. cephalosporin, cephamycin, fluoroquinolone, penam
contig00012 146012 149116 acrF 0/0 100.0 96.5 U00096:3415032-3418137 AcrF is a inner membrane transporter similar to AcrB. cephalosporin, cephamycin, fluoroquinolone, penam
contig00012 143782 144444 acrS 0/0 100.0 98.3 U00096:3413465-3412802 AcrS is a repressor of the AcrAB efflux complex and is associated with the expression of AcrEF. AcrS is believed to regulate a switch between AcrAB and AcrEF efflux. cephalosporin, cephamycin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00016 65414 66235 bacA 0/0 100.0 100.0 U00096.3:3204131-3203309 The bacA gene product (BacA) recycles undecaprenyl pyrophosphate during cell wall biosynthesis which confers resistance to bacitracin. peptide
contig00002 213045 213766 baeR 0/0 99.9 96.7 AP009048.1:2166412-2167135 BaeR is a response regulator that promotes the expression of MdtABC and AcrD efflux complexes. aminocoumarin, aminoglycoside
contig00002 213763 215166 baeS 0/0 100.0 90.6 AP009048:2165012-2166416 BaeS is a sensor kinase in the BaeSR regulatory system. While it phosphorylates BaeR to increase its activity BaeS is not necessary for overexpressed BaeR to confer resistance. aminocoumarin, aminoglycoside
contig00014 74079 75446 cpxA 0/0 99.6 98.6 BA000007.3:4905062-4903688 CpxA is a membrane-localized sensor kinase that is activated by envelope stress. It starts a kinase cascade that activates CpxR which promotes efflux complex expression. aminocoumarin, aminoglycoside
contig00005 15383 16015 CRP 0/0 100.0 99.0 AP009048.1:4154296-4153663 CRP is a global regulator that represses MdtEF multidrug efflux pump expression. fluoroquinolone, macrolide, penam
contig00036 35448 36323 CTX-M-55 0/0 100.0 100.0 DQ885477:0-876 CTX-M-55 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00024 72010 73182 emrA 0/0 100.0 98.1 AP009048:2810082-2811255 EmrA is a membrane fusion protein providing an efflux pathway with EmrB and TolC between the inner and outer membranes of E. coli a Gram-negative bacterium. fluoroquinolone
contig00024 73199 74737 emrB 0/0 100.0 98.1 U00096:2812615-2814154 emrB is a translocase in the emrB -TolC efflux protein in E. coli. It recognizes substrates including carbonyl cyanide m-chlorophenylhydrazone (CCCP) nalidixic acid and thioloactomycin. fluoroquinolone
contig00011 84001 85056 emrK 0/0 100.0 97.3 D78168:536-1592 emrK is a membrane fusion protein that is a homolog of EmrA. Together with the inner membrane transporter EmrY and the outer membrane channel TolC it mediates multidrug efflux. tetracycline
contig00024 71353 71883 emrR 0/0 100.0 98.5 U00096.3:2810769-2811300 EmrR is a negative regulator for the EmrAB-TolC multidrug efflux pump in E. coli. Mutations lead to EmrAB-TolC overexpression. fluoroquinolone
contig00011 82463 84001 emrY 0/0 100.0 97.7 D78168:1591-3130 emrY is a multidrug transport that moves substrates across the inner membrane of the Gram-negative E. coli. It is a homolog of emrB. tetracycline
contig00027 42681 44324 eptA 0/0 100.0 91.1 AP009048:4340268-4338624 PmrC mediates the modification of Lipid A by the addition of 4-amino-4-deoxy-L-arabinose (L-Ara4N) and phosphoethanolamine resulting in a less negative cell membrane and decreased binding of polymyxin B. peptide
contig00010 114704 115897 Escherichia_coli_acrA 0/0 100.0 99.2 U00096.3:485619-484425 AcrA is a subunit of the AcrAB-TolC multidrug efflux system that in E. coli. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00040 13292 14425 Escherichia_coli_ampC 0/0 100.0 98.0 U00096.3:4378944-4377810 A class C ampC beta-lactamase (cephalosporinase) enzyme described in Escherichia coli shown clinically to confer resistance to penicillin-like and cephalosporin-class antibiotics. cephalosporin, penam
contig00010 21615 22772 Escherichia_coli_ampH 0/0 100.0 97.2 AP012030.1:396711-395553 AmpH is a class C ampC-like beta-lactamase and penicillin-binding protein identified in Escherichia coli. cephalosporin, penam
contig00007 135370 135702 Escherichia_coli_emrE 0/0 100.0 92.2 Z11877.1:485-818 Member of the small MDR (multidrug resistance) family of transporters, in Escherichia coli this protein provides resistance against a number of positively charged compounds including ethidium bromide and erythromycin, proton-dependent secondary transporter which exchanges protons for compound translocation macrolide
contig00017 101270 102502 Escherichia_coli_mdfA 0/0 100.0 96.3 JQ394987:0-1233 Multidrug efflux pump in E. coli. This multidrug efflux system was originally identified as the Cmr/CmlA chloramphenicol exporter. benzalkonium_chloride, rhodamine, tetracycline
contig00011 85580 86194 evgA 0/0 100.0 100.0 BA000007.3:3212025-3212640 EvgA when phosphorylated is a positive regulator for efflux protein complexes emrKY and mdtEF. While usually phosphorylated in a EvgS dependent manner it can be phosphorylated in the absence of EvgS when overexpressed. fluoroquinolone, macrolide, penam, tetracycline
contig00011 86199 89792 evgS 0/0 100.0 99.4 U00096:2484373-2487967 EvgS is a sensor protein that phosphorylates the regulatory protein EvgA. evgS corresponds to 1 locus in Pseudomonas aeruginosa PAO1 and 1 locus in Pseudomonas aeruginosa LESB58. fluoroquinolone, macrolide, penam, tetracycline
contig00005 194273 195001 gadW 0/0 100.0 99.7 CP015085.1:2552440-2551711 GadW is an AraC-family regulator that promotes mdtEF expression to confer multidrug resistance. GadW inhibits GadX-dependent activation. GadW clearly represses gadX and in situations where GadX is missing activates gadA and gadBC. fluoroquinolone, macrolide, penam
contig00005 195370 196194 gadX 0/0 100.0 93.8 AP009048.1:3974604-3975429 GadX is an AraC-family regulator that promotes mdtEF expression to confer multidrug resistance. fluoroquinolone, macrolide, penam
contig00019 22172 22585 H-NS 0/0 100.0 99.3 BA000007.3:1738104-1737690 H-NS is a histone-like protein involved in global gene regulation in Gram-negative bacteria. It is a repressor of the membrane fusion protein genes acrE mdtE and emrK as well as nearby genes of many RND-type multidrug exporters. cephalosporin, cephamycin, fluoroquinolone, macrolide, penam, tetracycline
contig00009 41351 42023 kdpE 0/0 99.3 95.8 U00096.3:721733-721055 kdpE is a transcriptional activator that is part of the two-component system KdpD/KdpE that is studied for its regulatory role in potassium transport and has been identified as an adaptive regulator involved in the virulence and intracellular survival of pathogenic bacteria. kdpE regulates a range of virulence loci through direct promoter binding. aminoglycoside
contig00037 8996 9379 marA 0/0 100.0 98.4 AP009048.1:1621287-1621671 In the presence of antibiotic stress E. coli overexpresses the global activator protein MarA which besides inducing MDR efflux pump AcrAB also down- regulates synthesis of the porin OmpF. carbapenem, cephalosporin, cephamycin, fluoroquinolone, glycylcycline, monobactam, penam, penem, phenicol, rifamycin, tetracycline, triclosan
contig00002 222779 224026 mdtA 0/0 100.0 95.8 U00096:2154015-2155263 MdtA is the membrane fusion protein of the multidrug efflux complex mdtABC. aminocoumarin
contig00002 219657 222779 mdtB 0/0 100.0 95.9 U00096:2155262-2158385 MdtB is a transporter that forms a heteromultimer complex with MdtC to form a multidrug transporter. MdtBC is part of the MdtABC-TolC efflux complex. aminocoumarin
contig00002 216579 219656 mdtC 0/0 100.0 93.9 U00096:2158385-2161463 MdtC is a transporter that forms a heteromultimer complex with MdtB to form a multidrug transporter. MdtBC is part of the MdtABC-TolC efflux complex. In the absence of MdtB MdtC can form a homomultimer complex that results in a functioning efflux complex with a narrower drug specificity. mdtC corresponds to 3 loci in Pseudomonas aeruginosa PAO1 (gene name: muxC/muxB) and 3 loci in Pseudomonas aeruginosa LESB58. aminocoumarin
contig00005 189615 190772 mdtE 0/0 100.0 98.5 AP009048.1:3981183-3980025 MdtE is the membrane fusion protein of the MdtEF multidrug efflux complex. It shares 70% sequence similarity with AcrA. fluoroquinolone, macrolide, penam
contig00005 190797 193910 mdtF 0/0 100.0 97.3 U00096:3660413-3663527 MdtF is the multidrug inner membrane transporter for the MdtEF-TolC efflux complex. fluoroquinolone, macrolide, penam
contig00001 209697 210923 mdtG 0/0 100.0 98.4 CP000800.1:1192954-1191727 The MdtG protein also named YceE appears to be a member of the major facilitator superfamily of transporters and it has been reported when overexpressed to increase fosfomycin and deoxycholate resistances. mdtG is a member of the marA-soxS-rob regulon. fosfomycin
contig00001 219554 220762 mdtH 0/0 100.0 98.0 U00096:1125326-1124117 Multidrug resistance protein MdtH fluoroquinolone
contig00027 12423 13454 mdtN 0/0 100.0 94.9 AP009048.1:4307588-4306556 Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride. acridine_dye, nucleoside
contig00027 10372 12423 mdtO 0/0 100.0 97.1 AP009048.1:4306557-4304505 Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride acridine_dye, nucleoside
contig00027 8909 10375 mdtP 0/0 100.0 97.7 AP009048.1:4304509-4303042 Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride acridine_dye, nucleoside
contig00001 83064 84812 msbA 0/0 100.0 98.1 U00096.3:966620-968369 MsbA is a multidrug resistance transporter homolog from E. coli and belongs to a superfamily of transporters that contain an adenosine triphosphate (ATP) binding cassette (ABC) which is also called a nucleotide-binding domain (NBD). MsbA is a member of the MDR-ABC transporter group by sequence homology. MsbA transports lipid A a major component of the bacterial outer cell membrane and is the only bacterial ABC transporter that is essential for cell viability. nitroimidazole
contig00002 16442 17410 pmrF 0/0 100.0 97.7 U00096:2367070-2368039 PmrF is required for the synthesis and transfer of 4-amino-4-deoxy-L-arabinose (Ara4N) to Lipid A which allows gram-negative bacteria to resist the antimicrobial activity of cationic antimicrobial peptides and antibiotics such as polymyxin. pmrF corresponds to 1 locus in Pseudomonas aeruginosa PAO1 and 1 locus in Pseudomonas aeruginosa LESB58. peptide
contig00016 41549 43036 tolC 0/0 100.0 100.0 FJ768952:0-1488 TolC is a protein subunit of many multidrug efflux complexes in Gram negative bacteria. It is an outer membrane efflux protein and is constitutively open. Regulation of efflux activity is often at its periplasmic entrance by other components of the efflux complex. aminocoumarin, aminoglycoside, carbapenem, cephalosporin, cephamycin, fluoroquinolone, glycylcycline, macrolide, penam, penem, peptide, phenicol, rifamycin, tetracycline, triclosan
contig00028 51533 52699 ugd 0/0 100.0 97.0 U00096:2099613-2098446 PmrE is required for the synthesis and transfer of 4-amino-4-deoxy-L-arabinose (Ara4N) to Lipid A which allows gram-negative bacteria to resist the antimicrobial activity of cationic antimicrobial peptides and antibiotics such as polymyxin peptide
contig00002 75942 77585 yojI 0/0 100.0 97.9 U00096.3:2308615-2306971 YojI mediates resistance to the peptide antibiotic microcin J25 when it is expressed from a multicopy vector. YojI is capable of pumping out microcin molecules. The outer membrane protein TolC in addition to YojI is required for export of microcin J25 out of the cell. Microcin J25 is thus the first known substrate for YojI. peptide
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00040 13292 14425 (Bla)AmpC2_Ecoli 0/0 100 98.0 CP002970:332756-333889 (Bla)AmpC2_Ecoli NA
contig00010 21615 22772 (Bla)ampH_Ecoli 0/0 100 97.2 AP012030:395554-396711 (Bla)ampH_Ecoli NA
contig00036 35448 36323 (Bla)blaCTX-M-55 0/0 100 100.0 HM748991:321-1196 (Bla)blaCTX-M-55 NA
contig00009 95011 96912 (Bla)Penicillin_Binding_Protein_Ecoli 0/0 100 98.5 CP002291:664439-666340 (Bla)Penicillin_Binding_Protein_Ecoli NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00036 35448 36323 blaCTX-M-55 0/0 100 100.0 NG_049006.1 class A extended-spectrum beta-lactamase CTX-M-55 CEPHALOSPORIN
contig00040 13292 14425 blaEC-5 0/0 100 99.8 NG_049085.1 cephalosporin-hydrolyzing class C beta-lactamase EC-5 CEPHALOSPORIN
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00010 114704 115897 ACRA 0/0 100.0 99.2 MEG_399 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRA NA
contig00010 111532 114681 ACRB 0/0 100.0 98.8 MEG_401 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRB NA
contig00015 117169 120282 ACRD 0/0 100.0 98.5 MEG_407 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:ACRD NA
contig00012 144843 146000 ACRE 0/0 100.0 98.7 MEG_408 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRE NA
contig00012 146012 149116 ACRF 0/0 100.0 96.5 MEG_409 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRF NA
contig00012 143782 144444 ACRS 0/0 100.0 98.3 MEG_415 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:ACRS NA
contig00010 21615 22772 AMPH 0/0 100.0 97.2 MEG_729 Drugs:betalactams:Penicillin_binding_protein:AMPH NA
contig00002 235689 237541 ASMA 0/0 100.0 97.5 MEG_1180 Drugs:Multi-drug_resistance:Multi-drug_RND_efflux_regulator:ASMA NA
contig00016 65414 66235 BACA 0/0 100.0 100.0 MEG_1190 Drugs:Bacitracin:Undecaprenyl_pyrophosphate_phosphatase:BACA NA
contig00002 213045 213766 BAER 0/0 99.9 96.7 MEG_1192 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_regulator:BAER NA
contig00002 213763 215166 BAES 0/0 100.0 90.6 MEG_1193 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_regulator:BAES NA
contig00002 101053 102243 BCR 0/0 100.0 96.3 MEG_1210 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:BCR NA
contig00040 13292 14425 BLAEC 0/0 100.0 99.8 MEG_1275 Drugs:betalactams:Class_C_betalactamases:BLAEC NA
contig00014 73384 74082 CPXAR 0/0 100.0 97.8 MEG_2118 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR NA
contig00014 74079 75446 CPXAR 0/0 99.6 99.0 MEG_2121 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR NA
contig00005 15383 16015 CRP 0/0 100.0 99.0 MEG_2132 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CRP NA
contig00036 35202 36694 CTX 1/7 100.0 99.3 MEG_2421 Drugs:betalactams:Class_A_betalactamases:CTX NA
contig00024 72010 73182 EMRA 0/0 100.0 98.1 MEG_2722 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRA NA
contig00024 73199 74737 EMRB 0/0 100.0 98.1 MEG_2725 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRB NA
contig00008 6009 7199 EMRD 0/0 100.0 97.7 MEG_2729 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRD NA
contig00011 84001 85164 EMRK 0/0 100.0 97.2 MEG_2732 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRK NA
contig00024 71353 71883 EMRR 0/0 100.0 98.5 MEG_2734 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_regulator:EMRR NA
contig00011 82463 84001 EMRY 0/0 100.0 97.8 MEG_2736 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRY NA
contig00027 42681 44324 EPTA 0/0 100.0 91.1 MEG_2739 Drugs:Cationic_antimicrobial_peptides:Lipid_A_modification:EPTA NA
contig00011 86199 89792 EVGS 0/0 100.0 99.4 MEG_2870 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_regulator:EVGS NA
contig00005 194273 195001 GADW 0/0 100.0 99.7 MEG_3082 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:GADW NA
contig00005 195370 196194 GADX 0/0 100.0 93.8 MEG_3083 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:GADX NA
contig00019 22172 22585 HNS 0/0 100.0 99.3 MEG_3271 Drugs:Multi-drug_resistance:Multi-drug_RND_efflux_pumps:HNS NA
contig00009 41351 42023 KDPE 0/0 99.3 95.8 MEG_3448 Drugs:Aminoglycosides:Aminoglycoside_efflux_pumps:KDPE NA
contig00037 8996 9385 MARA 0/0 100.0 98.5 MEG_3662 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:MARA NA
contig00037 9400 9834 MARR 0/0 100.0 98.2 MEG_3663 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:MARR NA
contig00017 101270 102502 MDFA 0/0 100.0 98.0 MEG_3737 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDFA NA
contig00002 222779 224026 MDTA 0/0 100.0 95.8 MEG_3746 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTA NA
contig00002 219657 222779 MDTB 0/0 100.0 95.9 MEG_3747 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTB NA
contig00002 216579 219656 MDTC 0/0 100.0 93.9 MEG_3749 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTC NA
contig00005 189615 190772 MDTE 0/0 100.0 98.5 MEG_3751 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTE NA
contig00005 190797 193910 MDTF 0/0 100.0 97.3 MEG_3752 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTF NA
contig00001 209697 210923 MDTG 0/0 100.0 98.5 MEG_3753 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDTG NA
contig00001 219554 220762 MDTH 0/0 100.0 98.0 MEG_3755 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDTH NA
contig00013 110580 110909 MDTI 0/0 100.0 98.8 MEG_3756 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:MDTI NA
contig00013 110228 110593 MDTJ 0/0 100.0 97.5 MEG_3757 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:MDTJ NA
contig00013 28293 29665 MDTK 0/0 99.9 98.4 MEG_3759 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MATE_efflux_pumps:MDTK NA
contig00027 12423 13454 MDTN 0/0 100.0 94.9 MEG_3763 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTN NA
contig00027 10372 12423 MDTO 0/0 100.0 97.1 MEG_3764 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTO NA
contig00027 8909 10375 MDTP 0/0 100.0 97.7 MEG_3765 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTP NA
contig00001 83064 84812 MSBA 0/0 100.0 98.1 MEG_4061 Drugs:Multi-drug_resistance:Multi-drug_ABC_efflux_pumps:MSBA NA
contig00007 135370 135702 MVRC 0/0 100.0 92.2 MEG_4103 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:MVRC NA
contig00009 95011 96912 PBP2 0/0 100.0 98.5 MEG_5400 Drugs:betalactams:Penicillin_binding_protein:PBP2 NA
contig00002 16442 17410 PMRF 0/0 100.0 97.7 MEG_5801 Drugs:Cationic_antimicrobial_peptides:Lipid_A_modification:PMRF NA
contig00003 132918 133787 ROBA 0/0 100.0 97.2 MEG_6082 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:ROBA NA
contig00029 19373 19695 SOXS 0/0 99.7 98.1 MEG_6551 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_resistance_regulator:SOXS NA
contig00028 51533 52699 UGD 0/0 100.0 97.0 MEG_7328 Drugs:Cationic_antimicrobial_peptides:Lipid_A_modification:UGD NA
contig00002 75942 77585 YOGI 0/0 100.0 97.9 MEG_7842 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_ABC_efflux_pumps:YOGI NA
ID049
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00075 4779 5639 aac(3)-IId_1 0/0 100.0 99.9 EU022314 aac(3)-IId Gentamicin, Tobramycin
contig00070 901 1702 aadA2_1 0/0 97.9 99.9 NC_010870 aadA2 Streptomycin
contig00082 2324 3199 blaCTX-M-15_1 0/0 100.0 100.0 AY044436 blaCTX-M-15 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00104 79 939 blaTEM-1B_1 0/0 100.0 100.0 AY458016 blaTEM-1B Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin
contig00072 5984 6643 catA1_1 0/0 100.0 99.8 V00622 catA1 Chloramphenicol
contig00098 90 731 catA2_1 0/0 100.0 96.1 X53796 catA2 Chloramphenicol
contig00070 6 503 dfrA12_8 0/0 100.0 100.0 AM040708 dfrA12 Trimethoprim
contig00002 10013 11245 mdf(A)_1 0/0 100.0 99.9 Y08743 mdf(A)
contig00097 69 990 mph(A)_2 1/1 100.0 99.7 U36578 mph(A) Erythromycin, Azithromycin, Spiramycin, Telithromycin
contig00087 219 875 qnrS1_1 0/0 100.0 100.0 AB187515 qnrS1 Ciprofloxacin
contig00070 2180 3046 sul1_5 0/0 100.0 99.9 EU780013 sul1 Sulfamethoxazole
contig00086 109 900 sul3_2 0/0 100.0 100.0 AJ459418 sul3 Sulfamethoxazole
contig00078 2413 3659 tet(A)_6 0/0 97.8 99.9 AF534183 tet(A) Doxycycline, Tetracycline
contig00083 800 2005 tet(B)_2 0/0 100.0 100.0 AF326777 tet(B) Doxycycline, Tetracycline, Minocycline
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00075 4779 5639 AAC(3)-IId 0/0 100.0 99.9 EU022314.1:0-861 AAC(3)-IId is a plasmid-encoded aminoglycoside acetyltransferase in E. coli aminoglycoside
contig00070 923 1702 aadA2 0/0 100.0 99.9 AF156486:5012-5792 aadA2 is an aminoglycoside nucleotidyltransferase gene encoded by plasmids and integrons in K. pneumoniae Salmonella spp. Corynebacterium glutamicum C. freundii and Aeromonas spp. aminoglycoside
contig00006 39033 42182 acrB 0/0 100.0 100.0 U00096.3:484403-481253 Protein subunit of AcrA-AcrB-TolC multidrug efflux complex. AcrB functions as a herterotrimer which forms the inner membrane component and is primarily responsible for substrate recognition and energy transduction by acting as a drug/proton antiporter. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00008 71642 74755 acrD 0/0 100.0 100.0 AP009048.1:2586250-2589364 AcrD is an aminoglycoside efflux pump expressed in E. coli. Its expression can be induced by indole and is regulated by baeRS and cpxAR. aminoglycoside
contig00036 8480 9637 acrE 0/0 100.0 99.9 U00096:3413863-3415021 AcrE is a membrane fusion protein similar to AcrA. cephalosporin, cephamycin, fluoroquinolone, penam
contig00036 5364 8468 acrF 0/0 100.0 99.9 U00096:3415032-3418137 AcrF is a inner membrane transporter similar to AcrB. cephalosporin, cephamycin, fluoroquinolone, penam
contig00036 10036 10698 acrS 0/0 100.0 100.0 U00096:3413465-3412802 AcrS is a repressor of the AcrAB efflux complex and is associated with the expression of AcrEF. AcrS is believed to regulate a switch between AcrAB and AcrEF efflux. cephalosporin, cephamycin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00004 146459 147280 bacA 0/0 100.0 98.7 U00096.3:3204131-3203309 The bacA gene product (BacA) recycles undecaprenyl pyrophosphate during cell wall biosynthesis which confers resistance to bacitracin. peptide
contig00013 31061 31783 baeR 0/0 100.0 99.5 AP009048.1:2166412-2167135 BaeR is a response regulator that promotes the expression of MdtABC and AcrD efflux complexes. aminocoumarin, aminoglycoside
contig00013 31780 33183 baeS 0/0 100.0 99.9 AP009048:2165012-2166416 BaeS is a sensor kinase in the BaeSR regulatory system. While it phosphorylates BaeR to increase its activity BaeS is not necessary for overexpressed BaeR to confer resistance. aminocoumarin, aminoglycoside
contig00072 5984 6643 catI 0/0 100.0 99.8 V00622:243-903 catI is a chromosome and transposon-encoded variant of the cat gene found in Escherichia coli and Acinetobacter baumannii phenicol
contig00098 90 731 catII_from_Escherichia_coli_K-12 0/0 100.0 96.1 X53796.1:186-828 catII is a chloramphenicol acetyltransferase. This particular catII is found in E.coli K-12. Confers resistance to chloramphenicol. phenicol
contig00027 61530 62903 cpxA 0/0 100.0 99.0 BA000007.3:4905062-4903688 CpxA is a membrane-localized sensor kinase that is activated by envelope stress. It starts a kinase cascade that activates CpxR which promotes efflux complex expression. aminocoumarin, aminoglycoside
contig00005 15387 16019 CRP 0/0 100.0 99.4 AP009048.1:4154296-4153663 CRP is a global regulator that represses MdtEF multidrug efflux pump expression. fluoroquinolone, macrolide, penam
contig00082 2324 3199 CTX-M-15 0/0 100.0 100.0 AY044436:1435-2311 CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00070 6 503 dfrA12 0/0 100.0 100.0 GU585907.1:22103-21605 dfrA12 is an integron-encoded dihydrofolate reductase found in Vibrio cholerae diaminopyrimidine
contig00001 58458 59630 emrA 0/0 100.0 100.0 AP009048:2810082-2811255 EmrA is a membrane fusion protein providing an efflux pathway with EmrB and TolC between the inner and outer membranes of E. coli a Gram-negative bacterium. fluoroquinolone
contig00001 59647 61185 emrB 0/0 100.0 100.0 U00096:2812615-2814154 emrB is a translocase in the emrB -TolC efflux protein in E. coli. It recognizes substrates including carbonyl cyanide m-chlorophenylhydrazone (CCCP) nalidixic acid and thioloactomycin. fluoroquinolone
contig00009 121400 122455 emrK 0/0 100.0 99.9 D78168:536-1592 emrK is a membrane fusion protein that is a homolog of EmrA. Together with the inner membrane transporter EmrY and the outer membrane channel TolC it mediates multidrug efflux. tetracycline
contig00001 57801 58331 emrR 0/0 100.0 99.8 U00096.3:2810769-2811300 EmrR is a negative regulator for the EmrAB-TolC multidrug efflux pump in E. coli. Mutations lead to EmrAB-TolC overexpression. fluoroquinolone
contig00009 119862 121400 emrY 0/0 100.0 99.9 D78168:1591-3130 emrY is a multidrug transport that moves substrates across the inner membrane of the Gram-negative E. coli. It is a homolog of emrB. tetracycline
contig00012 99939 101582 eptA 0/0 100.0 99.9 AP009048:4340268-4338624 PmrC mediates the modification of Lipid A by the addition of 4-amino-4-deoxy-L-arabinose (L-Ara4N) and phosphoethanolamine resulting in a less negative cell membrane and decreased binding of polymyxin B. peptide
contig00006 37817 39010 Escherichia_coli_acrA 0/0 100.0 100.0 U00096.3:485619-484425 AcrA is a subunit of the AcrAB-TolC multidrug efflux system that in E. coli. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00012 65398 66531 Escherichia_coli_ampC 0/0 100.0 97.3 U00096.3:4378944-4377810 A class C ampC beta-lactamase (cephalosporinase) enzyme described in Escherichia coli shown clinically to confer resistance to penicillin-like and cephalosporin-class antibiotics. cephalosporin, penam
contig00008 106154 107458 Escherichia_coli_ampC1_beta-lactamase 0/0 100.0 99.9 FN649414.1:2765050-2766355 An ampC-like beta-lactamase identified from Escherichia coli. cephalosporin, penam
contig00006 127045 128202 Escherichia_coli_ampH 0/0 100.0 100.0 AP012030.1:396711-395553 AmpH is a class C ampC-like beta-lactamase and penicillin-binding protein identified in Escherichia coli. cephalosporin, penam
contig00002 10013 11245 Escherichia_coli_mdfA 0/0 100.0 98.4 JQ394987:0-1233 Multidrug efflux pump in E. coli. This multidrug efflux system was originally identified as the Cmr/CmlA chloramphenicol exporter. benzalkonium_chloride, rhodamine, tetracycline
contig00009 122978 123592 evgA 0/0 100.0 100.0 BA000007.3:3212025-3212640 EvgA when phosphorylated is a positive regulator for efflux protein complexes emrKY and mdtEF. While usually phosphorylated in a EvgS dependent manner it can be phosphorylated in the absence of EvgS when overexpressed. fluoroquinolone, macrolide, penam, tetracycline
contig00009 123597 127190 evgS 0/0 100.0 100.0 U00096:2484373-2487967 EvgS is a sensor protein that phosphorylates the regulatory protein EvgA. evgS corresponds to 1 locus in Pseudomonas aeruginosa PAO1 and 1 locus in Pseudomonas aeruginosa LESB58. fluoroquinolone, macrolide, penam, tetracycline
contig00042 1783 2511 gadW 0/0 100.0 94.7 CP015085.1:2552440-2551711 GadW is an AraC-family regulator that promotes mdtEF expression to confer multidrug resistance. GadW inhibits GadX-dependent activation. GadW clearly represses gadX and in situations where GadX is missing activates gadA and gadBC. fluoroquinolone, macrolide, penam
contig00042 592 1416 gadX 0/0 100.0 100.0 AP009048.1:3974604-3975429 GadX is an AraC-family regulator that promotes mdtEF expression to confer multidrug resistance. fluoroquinolone, macrolide, penam
contig00029 61368 61781 H-NS 0/0 100.0 99.3 BA000007.3:1738104-1737690 H-NS is a histone-like protein involved in global gene regulation in Gram-negative bacteria. It is a repressor of the membrane fusion protein genes acrE mdtE and emrK as well as nearby genes of many RND-type multidrug exporters. cephalosporin, cephamycin, fluoroquinolone, macrolide, penam, tetracycline
contig00010 8068 8745 kdpE 0/0 100.0 100.0 U00096.3:721733-721055 kdpE is a transcriptional activator that is part of the two-component system KdpD/KdpE that is studied for its regulatory role in potassium transport and has been identified as an adaptive regulator involved in the virulence and intracellular survival of pathogenic bacteria. kdpE regulates a range of virulence loci through direct promoter binding. aminoglycoside
contig00049 22981 23364 marA 0/0 100.0 100.0 AP009048.1:1621287-1621671 In the presence of antibiotic stress E. coli overexpresses the global activator protein MarA which besides inducing MDR efflux pump AcrAB also down- regulates synthesis of the porin OmpF. carbapenem, cephalosporin, cephamycin, fluoroquinolone, glycylcycline, monobactam, penam, penem, phenicol, rifamycin, tetracycline, triclosan
contig00013 40796 42043 mdtA 0/0 100.0 98.0 U00096:2154015-2155263 MdtA is the membrane fusion protein of the multidrug efflux complex mdtABC. aminocoumarin
contig00013 37674 40796 mdtB 0/0 100.0 99.8 U00096:2155262-2158385 MdtB is a transporter that forms a heteromultimer complex with MdtC to form a multidrug transporter. MdtBC is part of the MdtABC-TolC efflux complex. aminocoumarin
contig00013 34596 37673 mdtC 0/0 100.0 99.9 U00096:2158385-2161463 MdtC is a transporter that forms a heteromultimer complex with MdtB to form a multidrug transporter. MdtBC is part of the MdtABC-TolC efflux complex. In the absence of MdtB MdtC can form a homomultimer complex that results in a functioning efflux complex with a narrower drug specificity. mdtC corresponds to 3 loci in Pseudomonas aeruginosa PAO1 (gene name: muxC/muxB) and 3 loci in Pseudomonas aeruginosa LESB58. aminocoumarin
contig00042 6012 7169 mdtE 0/0 100.0 100.0 AP009048.1:3981183-3980025 MdtE is the membrane fusion protein of the MdtEF multidrug efflux complex. It shares 70% sequence similarity with AcrA. fluoroquinolone, macrolide, penam
contig00042 2874 5987 mdtF 0/0 100.0 100.0 U00096:3660413-3663527 MdtF is the multidrug inner membrane transporter for the MdtEF-TolC efflux complex. fluoroquinolone, macrolide, penam
contig00015 16670 17896 mdtG 0/0 100.0 99.4 CP000800.1:1192954-1191727 The MdtG protein also named YceE appears to be a member of the major facilitator superfamily of transporters and it has been reported when overexpressed to increase fosfomycin and deoxycholate resistances. mdtG is a member of the marA-soxS-rob regulon. fosfomycin
contig00015 26525 27733 mdtH 0/0 100.0 100.0 U00096:1125326-1124117 Multidrug resistance protein MdtH fluoroquinolone
contig00048 473 1684 mdtM 0/0 98.3 95.5 U00096.3:4568519-4567286 Multidrug resistance protein MdtM acridine_dye, fluoroquinolone, lincosamide, nucleoside, phenicol
contig00030 21853 22884 mdtN 0/0 100.0 100.0 AP009048.1:4307588-4306556 Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride. acridine_dye, nucleoside
contig00030 22884 24935 mdtO 0/0 100.0 100.0 AP009048.1:4306557-4304505 Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride acridine_dye, nucleoside
contig00030 24932 26398 mdtP 0/0 100.0 100.0 AP009048.1:4304509-4303042 Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride acridine_dye, nucleoside
contig00097 69 974 mphA 0/0 100.0 100.0 D16251.1:2531-1625 The mphA gene encodes for resistance enzyme MPH(2’)-I which preferentially inactivate 14-membered macrolides (e.g.erythromycin telithromycin roxithromycin) over 16-membered macrolides (e.g.tylosin spiramycin). It phosphorylates macrolides at 2’-OH hydroxyl of desosamine sugar of macrolides in a GTP-dependent manner. macrolide
contig00008 50480 50956 mphB 0/0 100.0 98.3 AE005174.2:3397370-3397847 The mphB gene encodes for MPH(2’)-II. This enzymes phosphorylates 14-membered and 16-membered macrolides. It phosphorylates macrolides in GTP- dependent manner at 2’-OH hydroxyl of desosamine sugar of macrolides. macrolide
contig00002 92961 94709 msbA 0/0 100.0 100.0 U00096.3:966620-968369 MsbA is a multidrug resistance transporter homolog from E. coli and belongs to a superfamily of transporters that contain an adenosine triphosphate (ATP) binding cassette (ABC) which is also called a nucleotide-binding domain (NBD). MsbA is a member of the MDR-ABC transporter group by sequence homology. MsbA transports lipid A a major component of the bacterial outer cell membrane and is the only bacterial ABC transporter that is essential for cell viability. nitroimidazole
contig00009 17667 18635 pmrF 0/0 100.0 100.0 U00096:2367070-2368039 PmrF is required for the synthesis and transfer of 4-amino-4-deoxy-L-arabinose (Ara4N) to Lipid A which allows gram-negative bacteria to resist the antimicrobial activity of cationic antimicrobial peptides and antibiotics such as polymyxin. pmrF corresponds to 1 locus in Pseudomonas aeruginosa PAO1 and 1 locus in Pseudomonas aeruginosa LESB58. peptide
contig00087 219 875 QnrS1 0/0 100.0 100.0 DQ485529.1:0-657 QnrS1 is a plasmid-mediated quinolone resistance protein found in Shigella flexneri fluoroquinolone
contig00070 2207 3046 sul1 0/0 100.0 100.0 JF969163:1053-1893 Sul1 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria. It is linked to other resistance genes of class 1 integrons. sulfonamide
contig00086 109 900 sul3 0/0 100.0 100.0 FJ196385:9323-8531 Sul3 is a sulfonamide resistant dihydropteroate synthase similar to Sul1 and Sul2. Its resistance gene was found encoded in E. coli plasmid DNA of sulfonamide resistant isolates. sulfonamide
contig00104 79 939 TEM-1 0/0 100.0 99.9 AL513383:161910-162771 TEM-1 is a broad-spectrum beta-lactamase found in many Gram-negative bacteria. Confers resistance to penicillins and first generation cephalosphorins. cephalosporin, monobactam, penam, penem
contig00078 2413 3659 tet(A) 0/0 97.8 99.9 AF534183.1:2970-4245 TetA is a tetracycline efflux pump found in many species of Gram-negative bacteria. tetracycline
contig00083 800 2005 tet(B) 0/0 100.0 99.8 AB089595:0-1206 Tet(B) is a tetracycline efflux protein expressed in many Gram-negative bacteria. It confers resistance to tetracycline doxycycline and minocycline but not tigecycline. tetracycline
contig00004 122595 124082 tolC 0/0 100.0 99.7 FJ768952:0-1488 TolC is a protein subunit of many multidrug efflux complexes in Gram negative bacteria. It is an outer membrane efflux protein and is constitutively open. Regulation of efflux activity is often at its periplasmic entrance by other components of the efflux complex. aminocoumarin, aminoglycoside, carbapenem, cephalosporin, cephamycin, fluoroquinolone, glycylcycline, macrolide, penam, penem, peptide, phenicol, rifamycin, tetracycline, triclosan
contig00040 42513 44156 yojI 0/0 100.0 100.0 U00096.3:2308615-2306971 YojI mediates resistance to the peptide antibiotic microcin J25 when it is expressed from a multicopy vector. YojI is capable of pumping out microcin molecules. The outer membrane protein TolC in addition to YojI is required for export of microcin J25 out of the cell. Microcin J25 is thus the first known substrate for YojI. peptide
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00075 4779 5639 (AGly)aac3-IId 0/0 100 99.9 EU022314:1-861 (AGly)aac3-IId NA
contig00070 923 1702 (AGly)aadA2 0/0 100 99.9 X68227:66-945 (AGly)aadA2 NA
contig00008 106154 107458 (Bla)AmpC1_Ecoli 0/0 100 99.9 FN649414:2765051-2766355 (Bla)AmpC1_Ecoli NA
contig00012 65398 66531 (Bla)AmpC2_Ecoli 0/0 100 97.3 CP002970:332756-333889 (Bla)AmpC2_Ecoli NA
contig00006 127045 128202 (Bla)ampH_Ecoli 0/0 100 100.0 AP012030:395554-396711 (Bla)ampH_Ecoli NA
contig00082 2324 3199 (Bla)blaCTX-M-15 0/0 100 100.0 JQ686199:261-1136 (Bla)blaCTX-M-15 NA
contig00104 79 939 (Bla)blaTEM-105 0/0 100 99.9 AF516720:215-1075 (Bla)blaTEM-105 NA
contig00010 60155 62056 (Bla)Penicillin_Binding_Protein_Ecoli 0/0 100 100.0 CP002291:664439-666340 (Bla)Penicillin_Binding_Protein_Ecoli NA
contig00087 219 875 (Flq)qnr-S1 0/0 100 100.0 AB187515:9737-10393 (Flq)qnr-S1 NA
contig00097 69 974 (MLS)mph(A) 0/0 100 100.0 DQ445270:1626-2531 (MLS)mph(A) NA
contig00072 5984 6643 (Phe)catA1 0/0 100 99.8 V00622:244-903 (Phe)catA1 NA
contig00098 90 731 (Phe)catA2 0/0 100 96.1 X53796:187-903 (Phe)catA2 NA
contig00070 2207 3046 (Sul)sul1 0/0 100 100.0 AF071413:6700-7539 (Sul)sul1 NA
contig00086 109 900 (Sul)sul3 0/0 100 100.0 HQ875016:7396-8187 (Sul)sul3 NA
contig00078 2385 3659 (Tet)tetA 0/0 100 99.9 JX424423:94438-95712 (Tet)tetA NA
contig00083 800 2005 (Tet)tetB 0/0 100 99.7 AB089594:1-1206 (Tet)tetB NA
contig00078 3690 4340 (Tet)tetR 0/0 100 99.8 HF545434:53576-54226 (Tet)tetR NA
contig00070 6 503 (Tmt)dfrA12 0/0 100 100.0 Z21672:310-807 (Tmt)dfrA12 NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00075 4779 5639 aac(3)-IId 0/0 100 100.0 NG_047251.1 aminoglycoside N-acetyltransferase AAC(3)-IId GENTAMICIN
contig00070 911 1702 aadA2 0/0 100 100.0 NG_047343.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA2 STREPTOMYCIN
contig00082 2324 3199 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00012 65398 66531 blaEC-15 0/0 100 98.5 NG_049081.1 class C extended-spectrum beta-lactamase EC-15 CEPHALOSPORIN
contig00104 79 939 blaTEM-1 0/0 100 100.0 NG_050145.1 class A broad-spectrum beta-lactamase TEM-1 BETA-LACTAM
contig00072 5984 6643 catA1 0/0 100 99.8 NG_047582.1 type A-1 chloramphenicol O-acetyltransferase CHLORAMPHENICOL
contig00098 90 731 catA2 0/0 100 100.0 NG_047596.1 type A-2 chloramphenicol O-acetyltransferase CatII CHLORAMPHENICOL
contig00070 6 503 dfrA12 0/0 100 100.0 NG_047689.1 trimethoprim-resistant dihydrofolate reductase DfrA12 TRIMETHOPRIM
contig00097 69 990 mph(A) 1/1 100 99.7 NG_047986.1 Mph(A) family macrolide 2’-phosphotransferase MACROLIDE
contig00087 219 875 qnrS1 0/0 100 100.0 NG_050543.1 quinolone resistance pentapeptide repeat protein QnrS1 QUINOLONE
contig00070 2207 3046 sul1 0/0 100 100.0 NG_048082.1 sulfonamide-resistant dihydropteroate synthase Sul1 SULFONAMIDE
contig00086 109 900 sul3 0/0 100 100.0 NG_048120.1 sulfonamide-resistant dihydropteroate synthase Sul3 SULFONAMIDE
contig00078 2385 3584 tet(A) 0/0 100 99.9 NG_048154.1 tetracycline efflux MFS transporter Tet(A) TETRACYCLINE
contig00083 800 2005 tet(B) 0/0 100 100.0 NG_048163.1 tetracycline efflux MFS transporter Tet(B) TETRACYCLINE
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00075 4779 5639 AAC3 0/0 100.0 100.0 MEG_64 Drugs:Aminoglycosides:Aminoglycoside_N-acetyltransferases:AAC3 NA
contig00006 37817 39010 ACRA 0/0 100.0 100.0 MEG_399 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRA NA
contig00006 39033 42182 ACRB 0/0 100.0 100.0 MEG_401 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRB NA
contig00008 71642 74755 ACRD 0/0 100.0 100.0 MEG_407 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:ACRD NA
contig00036 8480 9637 ACRE 0/0 100.0 99.9 MEG_408 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRE NA
contig00036 5364 8468 ACRF 0/0 100.0 99.9 MEG_409 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRF NA
contig00036 10036 10698 ACRS 0/0 100.0 100.0 MEG_415 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:ACRS NA
contig00006 127045 128202 AMPH 0/0 100.0 100.0 MEG_729 Drugs:betalactams:Penicillin_binding_protein:AMPH NA
contig00070 901 1702 ANT3-DPRIME 0/0 97.9 99.9 MEG_975 Drugs:Aminoglycosides:Aminoglycoside_O-nucleotidyltransferases:ANT3-DPRIME NA
contig00013 54308 56160 ASMA 0/0 100.0 97.2 MEG_1180 Drugs:Multi-drug_resistance:Multi-drug_RND_efflux_regulator:ASMA NA
contig00004 146459 147280 BACA 0/0 100.0 98.9 MEG_1189 Drugs:Bacitracin:Undecaprenyl_pyrophosphate_phosphatase:BACA NA
contig00013 31061 31783 BAER 0/0 100.0 99.5 MEG_1192 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_regulator:BAER NA
contig00013 31780 33183 BAES 0/0 100.0 99.9 MEG_1193 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_regulator:BAES NA
contig00026 23409 24599 BCR 0/0 100.0 99.9 MEG_1210 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:BCR NA
contig00012 65398 66531 BLAEC 0/0 100.0 98.5 MEG_1282 Drugs:betalactams:Class_C_betalactamases:BLAEC NA
contig00072 5984 6648 CATA 0/0 99.1 100.0 MEG_1593 Drugs:Phenicol:Chloramphenicol_acetyltransferases:CATA NA
contig00098 90 731 CATA 0/0 100.0 100.0 MEG_1568 Drugs:Phenicol:Chloramphenicol_acetyltransferases:CATA NA
contig00027 60835 61533 CPXAR 0/0 100.0 100.0 MEG_2122 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR NA
contig00027 61530 62903 CPXAR 0/0 100.0 100.0 MEG_2121 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR NA
contig00005 15387 16019 CRP 0/0 100.0 99.4 MEG_2132 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CRP NA
contig00064 12904 13846 CTX 0/0 100.0 98.2 MEG_2435 Drugs:betalactams:Class_A_betalactamases:CTX NA
contig00070 6 503 DFRA 0/0 100.0 100.0 MEG_2551 Drugs:Trimethoprim:Dihydrofolate_reductase:DFRA NA
contig00001 58458 59630 EMRA 0/0 100.0 100.0 MEG_2722 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRA NA
contig00001 59647 61185 EMRB 0/0 100.0 100.0 MEG_2725 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRB NA
contig00016 87249 88439 EMRD 0/0 100.0 100.0 MEG_2729 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRD NA
contig00009 121400 122563 EMRK 0/0 100.0 99.9 MEG_2732 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRK NA
contig00001 57801 58331 EMRR 0/0 100.0 99.8 MEG_2734 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_regulator:EMRR NA
contig00009 119862 121400 EMRY 0/0 100.0 99.9 MEG_2736 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRY NA
contig00012 99939 101582 EPTA 0/0 100.0 99.9 MEG_2739 Drugs:Cationic_antimicrobial_peptides:Lipid_A_modification:EPTA NA
contig00009 123597 127190 EVGS 0/0 100.0 100.0 MEG_2870 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_regulator:EVGS NA
contig00042 1783 2511 GADW 0/0 100.0 100.0 MEG_3081 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:GADW NA
contig00042 592 1416 GADX 0/0 100.0 100.0 MEG_3083 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:GADX NA
contig00029 61368 61781 HNS 0/0 100.0 99.3 MEG_3271 Drugs:Multi-drug_resistance:Multi-drug_RND_efflux_pumps:HNS NA
contig00010 8068 8745 KDPE 0/0 100.0 100.0 MEG_3448 Drugs:Aminoglycosides:Aminoglycoside_efflux_pumps:KDPE NA
contig00049 22975 23364 MARA 0/0 100.0 100.0 MEG_3662 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:MARA NA
contig00049 22527 22961 MARR 0/0 100.0 100.0 MEG_3663 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:MARR NA
contig00002 10013 11245 MDFA 0/0 100.0 100.0 MEG_3737 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDFA NA
contig00013 40796 42043 MDTA 0/0 100.0 98.0 MEG_3746 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTA NA
contig00013 37674 40796 MDTB 0/0 100.0 99.8 MEG_3747 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTB NA
contig00013 34596 37673 MDTC 0/0 100.0 99.9 MEG_3749 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTC NA
contig00042 6012 7169 MDTE 0/0 100.0 100.0 MEG_3751 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTE NA
contig00042 2874 5987 MDTF 0/0 100.0 100.0 MEG_3752 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTF NA
contig00015 16670 17896 MDTG 0/0 100.0 100.0 MEG_3753 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDTG NA
contig00015 26525 27733 MDTH 0/0 100.0 100.0 MEG_3755 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDTH NA
contig00035 21401 21730 MDTI 0/0 100.0 100.0 MEG_3756 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:MDTI NA
contig00035 21717 22082 MDTJ 0/0 100.0 99.5 MEG_3757 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:MDTJ NA
contig00023 43727 45100 MDTK 0/0 100.0 100.0 MEG_3759 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MATE_efflux_pumps:MDTK NA
contig00048 473 1684 MDTM 0/0 98.3 95.5 MEG_3761 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDTM NA
contig00030 21853 22884 MDTN 0/0 100.0 100.0 MEG_3763 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTN NA
contig00030 22884 24935 MDTO 0/0 100.0 100.0 MEG_3764 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTO NA
contig00030 24932 26398 MDTP 0/0 100.0 100.0 MEG_3765 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTP NA
contig00097 69 990 MPHA 1/1 100.0 99.7 MEG_4030 Drugs:MLS:Macrolide_phosphotransferases:MPHA NA
contig00008 50480 50956 MPHB 0/0 100.0 98.3 MEG_4033 Drugs:MLS:Macrolide_phosphotransferases:MPHB NA
contig00002 92961 94709 MSBA 0/0 100.0 100.0 MEG_4061 Drugs:Multi-drug_resistance:Multi-drug_ABC_efflux_pumps:MSBA NA
contig00010 60155 62056 PBP2 0/0 100.0 100.0 MEG_5400 Drugs:betalactams:Penicillin_binding_protein:PBP2 NA
contig00008 106154 107458 PBP4B 0/0 100.0 99.9 MEG_5409 Drugs:betalactams:Penicillin_binding_protein:PBP4B NA
contig00009 17667 18635 PMRF 0/0 100.0 100.0 MEG_5801 Drugs:Cationic_antimicrobial_peptides:Lipid_A_modification:PMRF NA
contig00087 219 875 QNRS 0/0 100.0 100.0 MEG_6020 Drugs:Fluoroquinolones:Quinolone_resistance_protein_Qnr:QNRS NA
contig00003 19983 20852 ROBA 0/0 100.0 99.0 MEG_6082 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:ROBA NA
contig00030 48015 48338 SOXS 0/0 100.0 100.0 MEG_6551 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_resistance_regulator:SOXS NA
contig00070 2206 3173 SULI 0/0 100.0 100.0 MEG_6615 Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULI NA
contig00086 109 900 SULIII 0/0 100.0 100.0 MEG_6639 Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULIII NA
contig00078 2385 3659 TETA 0/0 100.0 99.9 MEG_7024 Drugs:Tetracyclines:Tetracycline_resistance_MFS_efflux_pumps:TETA NA
contig00083 800 2005 TETB 0/0 100.0 100.0 MEG_7052 Drugs:Tetracyclines:Tetracycline_resistance_MFS_efflux_pumps:TETB NA
contig00083 2799 3215 TETD 0/0 100.0 100.0 MEG_7070 Drugs:Tetracyclines:Tetracycline_resistance_MFS_efflux_pumps:TETD NA
contig00040 42513 44156 YOGI 0/0 100.0 100.0 MEG_7842 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_ABC_efflux_pumps:YOGI NA
ID051II
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00402 1693 2553 aac(3)-IIa_1 0/0 100.0 99.8 X51534 aac(3)-IIa Gentamicin, Tobramycin
contig00429 1540 2139 aac(6’)-Ib-cr_1 0/0 100.0 100.0 DQ303918 aac(6’)-Ib-cr Ciprofloxacin
contig00177 2210 2998 aadA5_1 0/0 100.0 100.0 AF137361 aadA5 Streptomycin
contig00524 134 949 aph(3’)-Ia_1 0/0 100.0 100.0 V00359 aph(3’)-Ia
contig00148 256 1092 aph(6)-Id_1 0/0 100.0 100.0 M28829 aph(6)-Id Streptomycin
contig00179 5876 6751 blaCTX-M-15_1 0/0 100.0 100.0 AY044436 blaCTX-M-15 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00429 579 1409 blaOXA-1_1 0/0 100.0 100.0 HQ170510 blaOXA-1 Amoxicillin, Amoxicillin+Clavulanic_acid, Ampicillin, Ampicillin+Clavulanic_acid, Cefepime, Piperacillin, Piperacillin+Tazobactam
contig00487 89 730 catA2_1 0/0 100.0 96.1 X53796 catA2 Chloramphenicol
contig00607 73 555 dfrA14_5 0/0 100.0 99.8 DQ388123 dfrA14 Trimethoprim
contig00177 1606 2079 dfrA17_1 0/0 100.0 100.0 FJ460238 dfrA17 Trimethoprim
contig00280 4987 5406 fosA_6 0/0 100.0 93.6 ACZD01000244 fosA Fosfomycin
contig00511 68 989 mph(A)_2 1/1 100.0 99.7 U36578 mph(A) Erythromycin, Azithromycin, Spiramycin, Telithromycin
contig00004 5865 7040 oqxA_1 0/0 100.0 93.9 EU370913 oqxA Nalidixic_acid, Ciprofloxacin
contig00004 2689 5841 oqxB_1 0/0 100.0 95.5 EU370913 oqxB Nalidixic_acid, Ciprofloxacin
contig00125 1330 1986 qnrS1_1 0/0 100.0 100.0 AB187515 qnrS1 Ciprofloxacin
contig00177 3518 4384 sul1_5 0/0 100.0 99.9 EU780013 sul1 Sulfamethoxazole
contig00443 569 1384 sul2_2 0/0 100.0 100.0 AY034138 sul2 Sulfamethoxazole
contig00315 2630 3876 tet(A)_6 0/0 97.8 99.9 AF534183 tet(A) Doxycycline, Tetracycline
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00402 1693 2553 AAC(3)-IIe 0/0 100.0 99.5 EU022315.1:0-861 AAC(3)-IIe is a plasmid-encoded aminoglycoside acetyltransferase in E. coli aminoglycoside
contig00429 1540 2139 AAC(6’)-Ib-cr 0/0 100.0 100.0 DQ303918:0-600 AAC(6’)-Ib-cr is an aminoglycoside acetyltransferase encoded by plasmids transposons integrons in Enterobacteriaceae. The aac(6’)-Ib-cr variant gene can induce resistance against aminoglycoside and fluoroquinolone simultaneously aminoglycoside, fluoroquinolone
contig00177 2210 2998 aadA5 0/0 100.0 100.0 AF137361:63-852 aadA5 is an aminoglycoside nucleotidyltransferase gene encoded by plasmids transposons and integrons in E. coli K. pneumoniae Kluyvera georgiana P. aeruginosa and E. cloacae aminoglycoside
contig00524 136 949 APH(3’)-Ia 0/0 99.8 99.4 BX664015.1:103833-103017 APH(3’)-Ia is a transposon-encoded aminoglycoside phosphotransferase in E. coli and S. enterica. It is identical at the protein sequence to APH(3’)-Ic an aminoglycoside phosphotransferase encoded by plasmids transposons and genomic islands in K. pneumoniae A. baumannii S. marcescens Corynebacterium spp. Photobacterium spp. and Citrobacter spp. aminoglycoside
contig00148 256 1092 APH(6)-Id 0/0 100.0 99.9 AF024602:3155-3992 APH(6)-Id is an aminoglycoside phosphotransferase encoded by plasmids integrative conjugative elements and chromosomal genomic islands in K. pneumoniae Salmonella spp. E. coli Shigella flexneri Providencia alcalifaciens Pseudomonas spp. V. cholerae Edwardsiella tarda Pasteurella multocida and Aeromonas bestiarum aminoglycoside
contig00487 89 730 catII_from_Escherichia_coli_K-12 0/0 100.0 96.1 X53796.1:186-828 catII is a chloramphenicol acetyltransferase. This particular catII is found in E.coli K-12. Confers resistance to chloramphenicol. phenicol
contig00179 5876 6751 CTX-M-15 0/0 100.0 100.0 AY044436:1435-2311 CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00607 73 555 dfrA14 0/0 100.0 100.0 EU780012:2162-2645 dfrA14 is an integron-encoded dihydrofolate reductase found in Escherichia coli diaminopyrimidine
contig00177 1606 2079 dfrA17 0/0 100.0 100.0 DQ838665:0-474 dfrA17 is an integron-encoded dihydrofolate reductase found in Escherichia coli diaminopyrimidine
contig00280 4987 5406 FosA6 0/0 100.0 93.3 KU254579.1:59421-59841 fosA6 is a plasmid-encoded enzyme that confers resistance to fosfomycin in Escherichia coli by breaking the epoxide ring of the molecule. fosfomycin
contig00043 3169 4362 Klebsiella_pneumoniae_acrA 2/3 99.8 95.0 AJ318073.1:793-1990 AcrA is a subunit of the AcrAB multidrug efflux system that in K. pneumoniae which is encoded by the acrRAB operon. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00249 2152 2481 Klebsiella_pneumoniae_KpnF 0/0 100.0 93.3 AP006725.1:2484238-2484568 KpnF subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan. aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline
contig00188 4037 5209 Klebsiella_pneumoniae_KpnG 0/0 100.0 94.5 ACWO01000051.1:22092-23265 KpnG consists of ~390 residues and resembles EmrA of E. coli. Disruption of the pump components KpnG-KpnH signficantly decrease resistance to azithromycin ceftazidime ciprofloxacin ertapenem erythromycin gentamicin imipenem ticarcillin norfloxacin polymyxin-B piperacillin spectinomycin tobramycin and streptomycin aminoglycoside, carbapenem, cephalosporin, fluoroquinolone, macrolide, penam, penem, peptide
contig00069 1914 3038 Klebsiella_pneumoniae_OmpK37 0/0 100.0 92.4 AJ011502.1:300-1425 Klebsiella pneumoniae outer membrane porin protein. Is preferentially detected in porin-deficient strains. Functional characterization of this new porin revealed a narrower pore than those of porins OmpK35 and OmpK36 which did not allow penetration by certain beta-lactams. Also when a resistant strain expresses porin OmpK37 is less susceptible to cefotaxime and cefoxitin than when it is expressing either OmpK36 or OmpK35. carbapenem, cephalosporin, cephamycin, monobactam, penam, penem
contig00511 68 973 mphA 0/0 100.0 100.0 D16251.1:2531-1625 The mphA gene encodes for resistance enzyme MPH(2’)-I which preferentially inactivate 14-membered macrolides (e.g.erythromycin telithromycin roxithromycin) over 16-membered macrolides (e.g.tylosin spiramycin). It phosphorylates macrolides at 2’-OH hydroxyl of desosamine sugar of macrolides in a GTP-dependent manner. macrolide
contig00004 5865 7040 oqxA 0/0 100.0 93.9 EU370913.1:46651-47827 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig00004 2689 5841 oqxB 0/0 100.0 95.5 EU370913.1:47850-51003 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig00429 579 1409 OXA-1 0/0 100.0 100.0 JN420336.1:2230-1399 OXA-1 is a beta-lactamase found in E. coli cephalosporin, penam
contig00125 1330 1986 QnrS1 0/0 100.0 100.0 DQ485529.1:0-657 QnrS1 is a plasmid-mediated quinolone resistance protein found in Shigella flexneri fluoroquinolone
contig00177 3545 4384 sul1 0/0 100.0 100.0 JF969163:1053-1893 Sul1 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria. It is linked to other resistance genes of class 1 integrons. sulfonamide
contig00443 569 1384 sul2 0/0 100.0 100.0 AY055428.1:21084-20268 Sul2 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria usually found on small plasmids. sulfonamide
contig00315 2630 3876 tet(A) 0/0 97.8 99.9 AF534183.1:2970-4245 TetA is a tetracycline efflux pump found in many species of Gram-negative bacteria. tetracycline
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00402 1693 2553 (AGly)aac3-IIa 0/0 100 99.8 X51534:91-951 (AGly)aac3-IIa NA
contig00177 2210 2998 (AGly)aadA5 0/0 100 100.0 AF137361:64-852 (AGly)aadA5 NA
contig00524 134 949 (AGly)aph3-Ia 0/0 100 99.9 HQ840942:23569-24384 (AGly)aph3-Ia NA
contig00148 256 1092 (AGly)strB 0/0 100 100.0 FJ474091:264-1100 (AGly)strB NA
contig00137 5314 6474 (Bla)ampH 0/0 100 96.0 CP003785:4208384-4209544 (Bla)ampH NA
contig00179 5876 6751 (Bla)blaCTX-M-15 0/0 100 100.0 JQ686199:261-1136 (Bla)blaCTX-M-15 NA
contig00429 579 1409 (Bla)blaOXA-1 0/0 100 100.0 JQ682867:1-831 (Bla)blaOXA-1 NA
contig00280 4987 5406 (Fcyn)FosA6 0/0 100 93.3 KU254579:59422-59841 (Fcyn)FosA6 NA
contig00004 5865 7040 (Flq)OqxA 0/0 100 93.9 EU370913:46652-47827 (Flq)OqxA NA
contig00004 2689 5841 (Flq)OqxBgb 0/0 100 95.5 EU370913:47851-51003 (Flq)OqxBgb NA
contig00125 1330 1986 (Flq)qnr-S1 0/0 100 100.0 AB187515:9737-10393 (Flq)qnr-S1 NA
contig00511 68 973 (MLS)mph(A) 0/0 100 100.0 DQ445270:1626-2531 (MLS)mph(A) NA
contig00487 89 730 (Phe)catA2 0/0 100 96.1 X53796:187-903 (Phe)catA2 NA
contig00177 3545 4384 (Sul)sul1 0/0 100 100.0 AF071413:6700-7539 (Sul)sul1 NA
contig00443 569 1384 (Sul)sul2 0/0 100 100.0 EU360945:1617-2432 (Sul)sul2 NA
contig00315 2602 3876 (Tet)tetA 0/0 100 99.9 JX424423:94438-95712 (Tet)tetA NA
contig00315 3907 4557 (Tet)tetR 0/0 100 100.0 HF545434:53576-54226 (Tet)tetR NA
contig00607 73 546 (Tmt)dfrA14 0/0 100 99.8 GU726917:72-545 (Tmt)dfrA14 NA
contig00177 1606 2079 (Tmt)dfrA17 0/0 100 100.0 AB126604:98-571 (Tmt)dfrA17 NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00402 1693 2553 aac(3)-IIe 0/0 100 99.8 NG_047244.1 aminoglycoside N-acetyltransferase AAC(3)-IIe GENTAMICIN
contig00429 1540 2094 aac(6’)-Ib-D181Y 0/0 100 99.8 NG_067946.1 AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase AMIKACIN, KANAMYCIN, TOBRAMYCIN
contig00177 2210 2998 aadA5 0/0 100 100.0 NG_047357.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA5 STREPTOMYCIN
contig00524 134 949 aph(3’)-Ia 0/0 100 100.0 NG_047430.1 aminoglycoside O-phosphotransferase APH(3’)-Ia KANAMYCIN
contig00148 256 1092 aph(6)-Id 0/0 100 100.0 NG_047464.1 aminoglycoside O-phosphotransferase APH(6)-Id STREPTOMYCIN
contig00179 5876 6751 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00429 579 1409 blaOXA-1 0/0 100 100.0 NG_049392.1 oxacillin-hydrolyzing class D beta-lactamase OXA-1 CEPHALOSPORIN
contig00487 89 730 catA2 0/0 100 100.0 NG_047596.1 type A-2 chloramphenicol O-acetyltransferase CatII CHLORAMPHENICOL
contig00607 73 546 dfrA14 0/0 100 100.0 NG_047696.1 trimethoprim-resistant dihydrofolate reductase DfrA14 TRIMETHOPRIM
contig00177 1606 2079 dfrA17 0/0 100 99.8 NG_047710.1 trimethoprim-resistant dihydrofolate reductase DfrA17 TRIMETHOPRIM
contig00280 4987 5406 fosA_gen 0/0 100 93.6 NG_047881.1 FosA family fosfomycin resistance glutathione transferase FOSFOMYCIN
contig00511 68 989 mph(A) 1/1 100 99.7 NG_047986.1 Mph(A) family macrolide 2’-phosphotransferase MACROLIDE
contig00004 5865 7040 oqxA10 0/0 100 94.1 NG_050418.1 multidrug efflux RND transporter periplasmic adaptor subunit OqxA10 PHENICOL, QUINOLONE
contig00004 2689 5841 oqxB11 0/0 100 96.1 NG_050429.1 multidrug efflux RND transporter permease subunit OqxB11 PHENICOL, QUINOLONE
contig00125 1330 1986 qnrS1 0/0 100 100.0 NG_050543.1 quinolone resistance pentapeptide repeat protein QnrS1 QUINOLONE
contig00177 3545 4384 sul1 0/0 100 100.0 NG_048082.1 sulfonamide-resistant dihydropteroate synthase Sul1 SULFONAMIDE
contig00443 569 1384 sul2 0/0 100 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
contig00315 2602 3801 tet(A) 0/0 100 99.9 NG_048154.1 tetracycline efflux MFS transporter Tet(A) TETRACYCLINE
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00402 1693 2553 AAC3 0/0 100.0 99.8 MEG_44 Drugs:Aminoglycosides:Aminoglycoside_N-acetyltransferases:AAC3 NA
contig00043 3169 4362 ACRA 2/3 99.8 95.0 MEG_400 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRA NA
contig00137 5314 6474 AMPH 0/0 100.0 96.0 MEG_730 Drugs:betalactams:Penicillin_binding_protein:AMPH NA
contig00177 2210 2998 ANT3-DPRIME 0/0 100.0 100.0 MEG_928 Drugs:Aminoglycosides:Aminoglycoside_O-nucleotidyltransferases:ANT3-DPRIME NA
contig00524 134 949 APH3-PRIME 0/0 100.0 100.0 MEG_1079 Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH3-PRIME NA
contig00148 256 1092 APH6 0/0 100.0 100.0 MEG_1086 Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH6 NA
contig00017 1756 3579 ASMA 0/0 100.0 93.4 MEG_1179 Drugs:Multi-drug_resistance:Multi-drug_RND_efflux_regulator:ASMA NA
contig00487 89 730 CATA 0/0 100.0 100.0 MEG_1568 Drugs:Phenicol:Chloramphenicol_acetyltransferases:CATA NA
contig00008 28636 29334 CPXAR 0/0 100.0 97.0 MEG_2116 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR NA
contig00008 29331 30704 CPXAR 0/0 100.0 96.1 MEG_2115 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR NA
contig00112 13536 14424 CTX 0/0 100.0 95.4 MEG_2430 Drugs:betalactams:Class_A_betalactamases:CTX NA
contig00177 1606 2079 DFRA 0/0 100.0 100.0 MEG_2547 Drugs:Trimethoprim:Dihydrofolate_reductase:DFRA NA
contig00607 73 546 DFRA 0/0 100.0 100.0 MEG_2517 Drugs:Trimethoprim:Dihydrofolate_reductase:DFRA NA
contig00280 4987 5406 FOSA 0/0 100.0 93.6 MEG_2991 Drugs:Fosfomycin:Fosfomycin_thiol_transferases:FOSA NA
contig00005 3915 5146 KDEA 0/0 99.9 94.2 MEG_3447 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:KDEA NA
contig00188 4037 5209 KPN 0/0 100.0 94.5 MEG_3512 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:KPN NA
contig00249 2152 2481 KPNF 0/0 100.0 93.3 MEG_3515 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:KPNF NA
contig00060 19835 20938 KPNO 4/18 99.5 94.8 MEG_3516 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:KPNO NA
contig00511 68 989 MPHA 1/1 100.0 99.7 MEG_4030 Drugs:MLS:Macrolide_phosphotransferases:MPHA NA
contig00069 1914 3038 OMP37 0/0 100.0 92.4 MEG_4283 Drugs:betalactams:Mutant_porin_proteins:OMP37 NA
contig00004 5865 7040 OQXA 0/0 100.0 94.1 MEG_4326 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:OQXA NA
contig00004 2689 5841 OQXB 0/0 100.0 96.1 MEG_4364 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:OQXB NA
contig00429 579 1409 OXA 0/0 100.0 100.0 MEG_4980 Drugs:betalactams:Class_D_betalactamases:OXA NA
contig00022 29869 31335 PHOR 0/0 100.0 93.1 MEG_5786 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_regulator:PHOR NA
contig00125 1330 1986 QNRS 0/0 100.0 100.0 MEG_6020 Drugs:Fluoroquinolones:Quinolone_resistance_protein_Qnr:QNRS NA
contig00177 3544 4511 SULI 0/0 100.0 100.0 MEG_6615 Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULI NA
contig00443 569 1384 SULII 0/0 100.0 100.0 MEG_6617 Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULII NA
contig00315 2602 3876 TETA 0/0 100.0 99.9 MEG_7024 Drugs:Tetracyclines:Tetracycline_resistance_MFS_efflux_pumps:TETA NA
ID064
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00142 9384 9983 aac(6’)-Ib-cr_1 0/0 100.0 100.0 DQ303918 aac(6’)-Ib-cr Ciprofloxacin
contig00142 7203 8048 aadA16_1 0/0 100.0 99.6 EU675686 aadA16 Streptomycin
contig00067 9851 10654 aph(3’’)-Ib_5 0/0 100.0 99.9 AF321551 aph(3’’)-Ib Streptomycin
contig00067 9015 9851 aph(6)-Id_1 0/0 100.0 99.9 M28829 aph(6)-Id Streptomycin
contig00142 8835 9327 ARR-3_4 0/0 90.8 99.2 FM207631 ARR-3
contig00067 3737 4612 blaCTX-M-15_1 0/0 100.0 100.0 AY044436 blaCTX-M-15 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00233 4019 4879 blaSHV-37_1 0/0 100.0 100.0 AF467948 blaSHV-37
contig00067 7434 8294 blaTEM-1B_1 0/0 100.0 100.0 AY458016 blaTEM-1B Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin
contig00142 8229 8702 dfrA27_1 0/0 100.0 100.0 FJ459817 dfrA27 Trimethoprim
contig00146 112 531 fosA6_1 0/0 97.0 98.3 KU254579 fosA6 Fosfomycin
contig00105 6236 7411 oqxA_1 0/0 100.0 99.3 EU370913 oqxA Nalidixic_acid, Ciprofloxacin
contig00105 3060 6212 oqxB_1 0/0 100.0 98.8 EU370913 oqxB Nalidixic_acid, Ciprofloxacin
contig00398 188 844 qnrS1_1 0/0 100.0 100.0 AB187515 qnrS1 Ciprofloxacin
contig00142 5906 6772 sul1_5 0/0 100.0 99.9 EU780013 sul1 Sulfamethoxazole
contig00067 10715 11530 sul2_2 0/0 100.0 100.0 AY034138 sul2 Sulfamethoxazole
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00142 9384 9983 AAC(6’)-Ib-cr 0/0 100.0 100.0 DQ303918:0-600 AAC(6’)-Ib-cr is an aminoglycoside acetyltransferase encoded by plasmids transposons integrons in Enterobacteriaceae. The aac(6’)-Ib-cr variant gene can induce resistance against aminoglycoside and fluoroquinolone simultaneously aminoglycoside, fluoroquinolone
contig00142 7203 8048 aadA16 0/0 100.0 99.6 EU675686:3196-4042 aadA16 is an aminoglycoside nucleotidyltransferase gene encoded by plasmids and integrons in E. coli V. cholerae and K. pneumoniae aminoglycoside
contig00067 9851 10654 APH(3’’)-Ib 0/0 100.0 99.6 AF313472:15593-16397 APH(3’’)-Ib is an aminoglycoside phosphotransferase encoded by plasmids transposons integrative conjugative elements and chromosomes in Enterobacteriaceae and Pseudomonas spp. aminoglycoside
contig00067 9015 9851 APH(6)-Id 0/0 100.0 99.8 AF024602:3155-3992 APH(6)-Id is an aminoglycoside phosphotransferase encoded by plasmids integrative conjugative elements and chromosomal genomic islands in K. pneumoniae Salmonella spp. E. coli Shigella flexneri Providencia alcalifaciens Pseudomonas spp. V. cholerae Edwardsiella tarda Pasteurella multocida and Aeromonas bestiarum aminoglycoside
contig00142 8835 9287 arr-3 0/0 100.0 100.0 EU675686:1956-2409 arr-3 is a plasmid-encoded ribosyltransferase found in Vibrio fluvialis rifamycin
contig00067 3737 4612 CTX-M-15 0/0 100.0 100.0 AY044436:1435-2311 CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00142 8229 8702 dfrA27 0/0 100.0 100.0 KP076293.1:2347-2821 A dihydrofolate reductase and trimethoprim resistance gene from non-O1 non-O139 Vibrio cholerae diaminopyrimidine
contig00146 112 531 FosA6 0/0 100.0 98.3 KU254579.1:59421-59841 fosA6 is a plasmid-encoded enzyme that confers resistance to fosfomycin in Escherichia coli by breaking the epoxide ring of the molecule. fosfomycin
contig00046 3106 4299 Klebsiella_pneumoniae_acrA 2/3 99.8 97.9 AJ318073.1:793-1990 AcrA is a subunit of the AcrAB multidrug efflux system that in K. pneumoniae which is encoded by the acrRAB operon. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00114 9785 10147 Klebsiella_pneumoniae_KpnE 0/0 100.0 99.5 AP006725.1:2483889-2484252 KpnE subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline
contig00114 9469 9798 Klebsiella_pneumoniae_KpnF 0/0 100.0 98.8 AP006725.1:2484238-2484568 KpnF subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan. aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline
contig00169 3969 5141 Klebsiella_pneumoniae_KpnG 0/0 100.0 99.4 ACWO01000051.1:22092-23265 KpnG consists of ~390 residues and resembles EmrA of E. coli. Disruption of the pump components KpnG-KpnH signficantly decrease resistance to azithromycin ceftazidime ciprofloxacin ertapenem erythromycin gentamicin imipenem ticarcillin norfloxacin polymyxin-B piperacillin spectinomycin tobramycin and streptomycin aminoglycoside, carbapenem, cephalosporin, fluoroquinolone, macrolide, penam, penem, peptide
contig00074 1069 2193 Klebsiella_pneumoniae_OmpK37 0/0 100.0 99.4 AJ011502.1:300-1425 Klebsiella pneumoniae outer membrane porin protein. Is preferentially detected in porin-deficient strains. Functional characterization of this new porin revealed a narrower pore than those of porins OmpK35 and OmpK36 which did not allow penetration by certain beta-lactams. Also when a resistant strain expresses porin OmpK37 is less susceptible to cefotaxime and cefoxitin than when it is expressing either OmpK36 or OmpK35. carbapenem, cephalosporin, cephamycin, monobactam, penam, penem
contig00105 6236 7411 oqxA 0/0 100.0 99.3 EU370913.1:46651-47827 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig00105 3060 6212 oqxB 0/0 100.0 98.8 EU370913.1:47850-51003 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig00398 188 844 QnrS1 0/0 100.0 100.0 DQ485529.1:0-657 QnrS1 is a plasmid-mediated quinolone resistance protein found in Shigella flexneri fluoroquinolone
contig00233 4019 4879 SHV-37 0/0 100.0 100.0 AF467948:0-861 SHV-37 is a beta-lactamase found in Klebsiella pneumoniae. carbapenem, cephalosporin, penam
contig00142 5906 6745 sul1 0/0 100.0 100.0 JF969163:1053-1893 Sul1 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria. It is linked to other resistance genes of class 1 integrons. sulfonamide
contig00067 10715 11530 sul2 0/0 100.0 100.0 AY055428.1:21084-20268 Sul2 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria usually found on small plasmids. sulfonamide
contig00067 7434 8294 TEM-1 0/0 100.0 99.9 AL513383:161910-162771 TEM-1 is a broad-spectrum beta-lactamase found in many Gram-negative bacteria. Confers resistance to penicillins and first generation cephalosphorins. cephalosporin, monobactam, penam, penem
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00142 7203 8048 (AGly)aadA16 0/0 100 99.6 EU675686:3197-4042 (AGly)aadA16 NA
contig00067 9851 10654 (AGly)strA 0/0 100 99.8 AB366441:22458-23261 (AGly)strA NA
contig00067 9015 9851 (AGly)strB 0/0 100 99.9 FJ474091:264-1100 (AGly)strB NA
contig00072 11437 12597 (Bla)ampH 0/0 100 99.1 CP003785:4208384-4209544 (Bla)ampH NA
contig00067 3737 4612 (Bla)blaCTX-M-15 0/0 100 100.0 JQ686199:261-1136 (Bla)blaCTX-M-15 NA
contig00233 4019 4879 (Bla)blaSHV-37 0/0 100 100.0 AF467948:1-861 (Bla)blaSHV-37 NA
contig00067 7434 8294 (Bla)blaTEM-105 0/0 100 99.9 AF516720:215-1075 (Bla)blaTEM-105 NA
contig00146 112 531 (Fcyn)FosA6 0/0 100 98.3 KU254579:59422-59841 (Fcyn)FosA6 NA
contig00105 6236 7411 (Flq)OqxA 0/0 100 99.3 EU370913:46652-47827 (Flq)OqxA NA
contig00105 3060 6212 (Flq)OqxBgb 0/0 100 98.8 EU370913:47851-51003 (Flq)OqxBgb NA
contig00398 188 844 (Flq)qnr-S1 0/0 100 100.0 AB187515:9737-10393 (Flq)qnr-S1 NA
contig00142 8835 9287 (Rif)arr3 0/0 100 100.0 JF806499:1353-1805 (Rif)arr3 NA
contig00142 5906 6745 (Sul)sul1 0/0 100 100.0 AF071413:6700-7539 (Sul)sul1 NA
contig00067 10715 11530 (Sul)sul2 0/0 100 100.0 EU360945:1617-2432 (Sul)sul2 NA
contig00142 8229 8702 (Tmt)dfrA27 0/0 100 100.0 EU675686:2543-3016 (Tmt)dfrA27 NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00142 9384 9938 aac(6’)-Ib-D181Y 0/0 100 99.8 NG_067946.1 AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase AMIKACIN, KANAMYCIN, TOBRAMYCIN
contig00142 7203 8048 aadA16 0/0 100 100.0 NG_047339.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA16 STREPTOMYCIN
contig00067 9851 10678 aph(3’’)-Ib 0/0 100 99.9 NG_056002.2 aminoglycoside O-phosphotransferase APH(3’’)-Ib STREPTOMYCIN
contig00067 9015 9851 aph(6)-Id 0/0 100 100.0 NG_047466.1 aminoglycoside O-phosphotransferase APH(6)-Id STREPTOMYCIN
contig00142 8835 9287 arr-3 0/0 100 100.0 NG_048581.1 NAD(+)–rifampin ADP-ribosyltransferase Arr-3 RIFAMYCIN
contig00067 3737 4612 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00233 4019 4879 blaSHV-37 0/0 100 100.0 NG_050076.1 class A beta-lactamase SHV-37 BETA-LACTAM
contig00067 7434 8294 blaTEM-1 0/0 100 100.0 NG_050145.1 class A broad-spectrum beta-lactamase TEM-1 BETA-LACTAM
contig00142 8229 8702 dfrA27 0/0 100 100.0 NG_047723.1 trimethoprim-resistant dihydrofolate reductase DfrA27 TRIMETHOPRIM
contig00146 112 531 fosA6 0/0 100 98.3 NG_051497.1 fosfomycin resistance glutathione transferase FosA6 FOSFOMYCIN
contig00105 6236 7411 oqxA9 0/0 100 99.7 NG_050427.1 multidrug efflux RND transporter periplasmic adaptor subunit OqxA9 PHENICOL, QUINOLONE
contig00105 3060 6212 oqxB20 0/0 100 99.6 NG_050439.1 multidrug efflux RND transporter permease subunit OqxB20 PHENICOL, QUINOLONE
contig00398 188 844 qnrS1 0/0 100 100.0 NG_050543.1 quinolone resistance pentapeptide repeat protein QnrS1 QUINOLONE
contig00142 5906 6745 sul1 0/0 100 100.0 NG_048082.1 sulfonamide-resistant dihydropteroate synthase Sul1 SULFONAMIDE
contig00067 10715 11530 sul2 0/0 100 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00046 3106 4299 ACRA 2/3 99.8 97.9 MEG_400 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRA NA
contig00072 11437 12597 AMPH 0/0 100.0 99.1 MEG_730 Drugs:betalactams:Penicillin_binding_protein:AMPH NA
contig00142 7203 8048 ANT3-DPRIME 0/0 100.0 100.0 MEG_763 Drugs:Aminoglycosides:Aminoglycoside_O-nucleotidyltransferases:ANT3-DPRIME NA
contig00067 9851 10678 APH3-DPRIME 0/0 100.0 99.9 MEG_1019 Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH3-DPRIME NA
contig00067 9015 9851 APH6 0/0 100.0 100.0 MEG_1084 Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH6 NA
contig00142 8835 9327 ARR 0/0 90.8 99.2 MEG_1135 Drugs:Rifampin:Rifampin_ADP-ribosyltransferase_Arr:ARR NA
contig00015 45634 47457 ASMA 0/0 100.0 99.5 MEG_1179 Drugs:Multi-drug_resistance:Multi-drug_RND_efflux_regulator:ASMA NA
contig00006 10341 11039 CPXAR 0/0 100.0 99.6 MEG_2116 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR NA
contig00006 11036 12409 CPXAR 0/0 100.0 99.2 MEG_2115 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR NA
contig00142 8229 8702 DFRA 0/0 100.0 100.0 MEG_2554 Drugs:Trimethoprim:Dihydrofolate_reductase:DFRA NA
contig00146 112 531 FOSA 0/0 100.0 98.3 MEG_2987 Drugs:Fosfomycin:Fosfomycin_thiol_transferases:FOSA NA
contig00028 17987 19219 KDEA 0/0 100.0 99.7 MEG_3447 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:KDEA NA
contig00169 3969 5141 KPN 0/0 100.0 99.4 MEG_3512 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:KPN NA
contig00114 9785 10147 KPNE 0/0 100.0 99.5 MEG_3514 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:KPNE NA
contig00114 9469 9798 KPNF 0/0 100.0 98.8 MEG_3515 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:KPNF NA
contig00065 19738 20838 KPNO 2/9 99.7 95.7 MEG_3516 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:KPNO NA
contig00074 1069 2193 OMP37 0/0 100.0 99.4 MEG_4283 Drugs:betalactams:Mutant_porin_proteins:OMP37 NA
contig00105 6236 7411 OQXA 0/0 100.0 99.7 MEG_4331 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:OQXA NA
contig00105 3060 6212 OQXB 0/0 100.0 99.6 MEG_4355 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:OQXB NA
contig00023 27562 29028 PHOR 0/0 100.0 99.8 MEG_5786 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_regulator:PHOR NA
contig00398 188 844 QNRS 0/0 100.0 100.0 MEG_6020 Drugs:Fluoroquinolones:Quinolone_resistance_protein_Qnr:QNRS NA
contig00233 3973 4976 SHV 0/0 99.7 98.5 MEG_6428 Drugs:betalactams:Class_A_betalactamases:SHV NA
contig00142 5779 6746 SULI 0/0 100.0 100.0 MEG_6615 Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULI NA
contig00067 10715 11530 SULII 0/0 100.0 100.0 MEG_6617 Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULII NA
contig00067 7067 8312 TEM 0/0 98.3 99.4 MEG_6875 Drugs:betalactams:Class_A_betalactamases:TEM NA
ID100
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00021 23104 23907 aph(3’’)-Ib_5 0/0 100.0 100.0 AF321551 aph(3’’)-Ib Streptomycin
contig00021 22268 23104 aph(6)-Id_1 0/0 100.0 100.0 M28829 aph(6)-Id Streptomycin
contig00021 16990 17865 blaCTX-M-15_1 0/0 100.0 100.0 AY044436 blaCTX-M-15 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00021 20687 21547 blaTEM-1B_1 0/0 100.0 100.0 AY458016 blaTEM-1B Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin
contig00691 399 1040 catA2_1 0/0 100.0 96.1 X53796 catA2 Chloramphenicol
contig00668 183 665 dfrA14_5 0/0 100.0 99.6 DQ388123 dfrA14 Trimethoprim
contig00535 2074 2493 fosA5_1 0/0 100.0 100.0 EU195449 fosA5 Fosfomycin
contig00199 3019 6171 oqxB_1 0/0 100.0 99.6 EU370913 oqxB Nalidixic_acid, Ciprofloxacin
contig00021 11693 12349 qnrS1_1 0/0 100.0 100.0 AB187515 qnrS1 Ciprofloxacin
contig00021 23968 24783 sul2_2 0/0 100.0 100.0 AY034138 sul2 Sulfamethoxazole
contig00471 1514 2760 tet(A)_6 0/0 97.8 100.0 AF534183 tet(A) Doxycycline, Tetracycline
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00021 23104 23907 APH(3’’)-Ib 0/0 100.0 99.8 AF313472:15593-16397 APH(3’’)-Ib is an aminoglycoside phosphotransferase encoded by plasmids transposons integrative conjugative elements and chromosomes in Enterobacteriaceae and Pseudomonas spp. aminoglycoside
contig00021 22268 23104 APH(6)-Id 0/0 100.0 99.9 AF024602:3155-3992 APH(6)-Id is an aminoglycoside phosphotransferase encoded by plasmids integrative conjugative elements and chromosomal genomic islands in K. pneumoniae Salmonella spp. E. coli Shigella flexneri Providencia alcalifaciens Pseudomonas spp. V. cholerae Edwardsiella tarda Pasteurella multocida and Aeromonas bestiarum aminoglycoside
contig00691 399 1040 catII_from_Escherichia_coli_K-12 0/0 100.0 96.1 X53796.1:186-828 catII is a chloramphenicol acetyltransferase. This particular catII is found in E.coli K-12. Confers resistance to chloramphenicol. phenicol
contig00021 16990 17865 CTX-M-15 0/0 100.0 100.0 AY044436:1435-2311 CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00668 183 665 dfrA14 0/0 100.0 99.8 EU780012:2162-2645 dfrA14 is an integron-encoded dihydrofolate reductase found in Escherichia coli diaminopyrimidine
contig00535 2074 2493 FosA5 0/0 100.0 100.0 KP143090.1:1619-1199 fosA5 is a fosfomycin resistance gene isolated from clinical strain of Escherichia coli E265. It is susceptible to amikacin tetracycline and imipenem and resistant to sulphonamide cephalosporins gentamicin ciprofloxacin chloramphenicol and streptomycin fosfomycin
contig00097 3116 4309 Klebsiella_pneumoniae_acrA 2/3 99.8 97.9 AJ318073.1:793-1990 AcrA is a subunit of the AcrAB multidrug efflux system that in K. pneumoniae which is encoded by the acrRAB operon. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00182 3863 4225 Klebsiella_pneumoniae_KpnE 0/0 100.0 99.5 AP006725.1:2483889-2484252 KpnE subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline
contig00182 3547 3876 Klebsiella_pneumoniae_KpnF 0/0 100.0 100.0 AP006725.1:2484238-2484568 KpnF subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan. aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline
contig00328 1001 2155 Klebsiella_pneumoniae_OmpK37 7/32 99.9 95.1 AJ011502.1:300-1425 Klebsiella pneumoniae outer membrane porin protein. Is preferentially detected in porin-deficient strains. Functional characterization of this new porin revealed a narrower pore than those of porins OmpK35 and OmpK36 which did not allow penetration by certain beta-lactams. Also when a resistant strain expresses porin OmpK37 is less susceptible to cefotaxime and cefoxitin than when it is expressing either OmpK36 or OmpK35. carbapenem, cephalosporin, cephamycin, monobactam, penam, penem
contig00199 3019 6171 oqxB 0/0 100.0 99.6 EU370913.1:47850-51003 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig00021 11693 12349 QnrS1 0/0 100.0 100.0 DQ485529.1:0-657 QnrS1 is a plasmid-mediated quinolone resistance protein found in Shigella flexneri fluoroquinolone
contig00021 23968 24783 sul2 0/0 100.0 100.0 AY055428.1:21084-20268 Sul2 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria usually found on small plasmids. sulfonamide
contig00021 20687 21547 TEM-1 0/0 100.0 99.9 AL513383:161910-162771 TEM-1 is a broad-spectrum beta-lactamase found in many Gram-negative bacteria. Confers resistance to penicillins and first generation cephalosphorins. cephalosporin, monobactam, penam, penem
contig00471 1514 2760 tet(A) 0/0 97.8 100.0 AF534183.1:2970-4245 TetA is a tetracycline efflux pump found in many species of Gram-negative bacteria. tetracycline
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00021 23104 23907 (AGly)strA 0/0 100 99.9 AB366441:22458-23261 (AGly)strA NA
contig00021 22268 23104 (AGly)strB 0/0 100 100.0 FJ474091:264-1100 (AGly)strB NA
contig00166 5288 6448 (Bla)ampH 0/0 100 99.1 CP003785:4208384-4209544 (Bla)ampH NA
contig00021 16990 17865 (Bla)blaCTX-M-15 0/0 100 100.0 JQ686199:261-1136 (Bla)blaCTX-M-15 NA
contig00021 20687 21547 (Bla)blaTEM-105 0/0 100 99.9 AF516720:215-1075 (Bla)blaTEM-105 NA
contig00535 2074 2493 (Fcyn)FosA5 0/0 100 100.0 KP143090:1200-1619 (Fcyn)FosA5 NA
contig00199 3019 6171 (Flq)OqxBgb 0/0 100 99.6 EU370913:47851-51003 (Flq)OqxBgb NA
contig00021 11693 12349 (Flq)qnr-S1 0/0 100 100.0 AB187515:9737-10393 (Flq)qnr-S1 NA
contig00691 399 1040 (Phe)catA2 0/0 100 96.1 X53796:187-903 (Phe)catA2 NA
contig00021 23968 24783 (Sul)sul2 0/0 100 100.0 EU360945:1617-2432 (Sul)sul2 NA
contig00471 1486 2760 (Tet)tetA 0/0 100 100.0 JX424423:94438-95712 (Tet)tetA NA
contig00668 183 656 (Tmt)dfrA14 0/0 100 100.0 GU726917:72-545 (Tmt)dfrA14 NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00021 23104 23931 aph(3’’)-Ib 0/0 100 100.0 NG_056002.2 aminoglycoside O-phosphotransferase APH(3’’)-Ib STREPTOMYCIN
contig00021 22268 23104 aph(6)-Id 0/0 100 100.0 NG_047464.1 aminoglycoside O-phosphotransferase APH(6)-Id STREPTOMYCIN
contig00021 16990 17865 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00021 20687 21547 blaTEM-1 0/0 100 100.0 NG_050145.1 class A broad-spectrum beta-lactamase TEM-1 BETA-LACTAM
contig00691 399 1040 catA2 0/0 100 100.0 NG_047596.1 type A-2 chloramphenicol O-acetyltransferase CatII CHLORAMPHENICOL
contig00668 183 656 dfrA14 0/0 100 100.0 NG_056035.1 trimethoprim-resistant dihydrofolate reductase DfrA14 TRIMETHOPRIM
contig00535 2074 2493 fosA5 0/0 100 100.0 NG_050409.1 fosfomycin resistance glutathione transferase FosA5 FOSFOMYCIN
contig00199 3019 6171 oqxB10 0/0 100 99.9 NG_050428.1 multidrug efflux RND transporter permease subunit OqxB10 PHENICOL, QUINOLONE
contig00021 11693 12349 qnrS1 0/0 100 100.0 NG_050543.1 quinolone resistance pentapeptide repeat protein QnrS1 QUINOLONE
contig00021 23968 24783 sul2 0/0 100 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
contig00471 1486 2685 tet(A) 0/0 100 100.0 NG_048154.1 tetracycline efflux MFS transporter Tet(A) TETRACYCLINE
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00097 3116 4309 ACRA 2/3 99.8 97.9 MEG_400 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRA NA
contig00166 5288 6448 AMPH 0/0 100.0 99.1 MEG_730 Drugs:betalactams:Penicillin_binding_protein:AMPH NA
contig00021 23104 23931 APH3-DPRIME 0/0 100.0 100.0 MEG_1019 Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH3-DPRIME NA
contig00021 22268 23104 APH6 0/0 100.0 100.0 MEG_1086 Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH6 NA
contig00691 399 1040 CATA 0/0 100.0 100.0 MEG_1568 Drugs:Phenicol:Chloramphenicol_acetyltransferases:CATA NA
contig00078 7021 7719 CPXAR 0/0 100.0 99.7 MEG_2116 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR NA
contig00078 7716 9089 CPXAR 0/0 100.0 99.2 MEG_2115 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR NA
contig00012 23641 24583 CTX 0/0 100.0 95.0 MEG_2435 Drugs:betalactams:Class_A_betalactamases:CTX NA
contig00016 12232 13174 CTX 0/0 100.0 91.6 MEG_2435 Drugs:betalactams:Class_A_betalactamases:CTX NA
contig00668 183 656 DFRA 0/0 100.0 99.8 MEG_2517 Drugs:Trimethoprim:Dihydrofolate_reductase:DFRA NA
contig00535 2074 2493 FOSA 0/0 100.0 100.0 MEG_2995 Drugs:Fosfomycin:Fosfomycin_thiol_transferases:FOSA NA
contig00182 3863 4225 KPNE 0/0 100.0 99.5 MEG_3514 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:KPNE NA
contig00182 3547 3876 KPNF 0/0 100.0 100.0 MEG_3515 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:KPNF NA
contig00025 17992 19110 KPNO 6/33 99.5 91.9 MEG_3516 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:KPNO NA
contig00328 1001 2155 OMP37 7/32 99.9 95.1 MEG_4283 Drugs:betalactams:Mutant_porin_proteins:OMP37 NA
contig00199 3019 6171 OQXB 0/0 100.0 99.9 MEG_4362 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:OQXB NA
contig00135 6270 7736 PHOR 0/0 100.0 99.7 MEG_5786 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_regulator:PHOR NA
contig00021 11693 12349 QNRS 0/0 100.0 100.0 MEG_6020 Drugs:Fluoroquinolones:Quinolone_resistance_protein_Qnr:QNRS NA
contig00021 23968 24783 SULII 0/0 100.0 100.0 MEG_6617 Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULII NA
contig00021 20320 21565 TEM 0/0 98.3 99.4 MEG_6875 Drugs:betalactams:Class_A_betalactamases:TEM NA
contig00471 1486 2760 TETA 0/0 100.0 100.0 MEG_7024 Drugs:Tetracyclines:Tetracycline_resistance_MFS_efflux_pumps:TETA NA


Summary figures

Presence/Absence of antibiotic resistance genes (coverage and identity > 90%) on each sample

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Resfinder
CARD
ARG-ANNOT
NCBI
MEGARES


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Plasmid Profiling


Field Description
Contig Contig name where the gene was found
Start Start position of the gene within the contig
End End position of the gene within the contig
Gene Antibiotic resistance gene
Gaps Gaps in subject (genome) and query (antibiotic resistance gene)
Coverage Proportion (%) of the gene covered
Identity Proportion (%) of exact nucleotide matches
Accession Accesion number of the antibiotic resistance gene
Product Antibiotic resistance gene product


Select sample

ID014
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00245 4101 4214 Col440I_1 0/0 100 97.4 CP023920.1 Col440I_1__CP023920.1
contig00025 39842 40401 IncFIB(pKPHS1)_1_pKPHS1 0/0 100 99.6 CP003223 IncFIB(pKPHS1)_1_pKPHS1_CP003223
contig00199 846 1096 IncR_1 0/0 100 100.0 DQ449578 IncR_1__DQ449578
contig00151 541 1305 IncY_1 0/0 100 99.5 K02380 IncY_1__K02380
contig00039 16174 16923 pESA2_1 0/0 100 97.9 CP000784 pESA2_1__CP000784
ID022
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00021 40818 41377 IncFIB(K)_1_Kpn3 0/0 100 99.5 JN233704 IncFIB(K)_1_Kpn3_JN233704
contig00023 27518 27956 IncFIB(Mar)_1_pNDM-Mar 0/0 100 100.0 JN420336 IncFIB(Mar)_1_pNDM-Mar_JN420336
contig00268 3308 3877 IncHI1B_1_pNDM-MAR 0/0 100 99.8 JN420336 IncHI1B_1_pNDM-MAR_JN420336
ID030III
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00081 5239 5612 IncX1_1 0/0 100 98.7 EU370913 IncX1_1__EU370913
ID030II
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00026 747 1134 IncFIA(HI1)_1_HI1 0/0 100 100.0 AF250878 IncFIA(HI1)_1_HI1_AF250878
contig00034 38337 38756 IncHI1A_1 0/0 100 99.8 AF250878 IncHI1A_1__AF250878
contig00034 24721 25260 IncHI1B(R27)_1_R27 0/0 100 100.0 AF250878 IncHI1B(R27)_1_R27_AF250878
contig00043 5323 5696 IncX1_1 0/0 100 98.9 EU370913 IncX1_1__EU370913
ID030I
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00084 3630 3771 Col156_1 0/0 92.2 98.6 NC_009781 Col156_1__NC_009781
contig00105 3338 3491 Col156_1 0/0 100.0 94.8 NC_009781 Col156_1__NC_009781
contig00077 10944 11331 IncFIA_1 0/0 100.0 99.7 AP001918 IncFIA_1__AP001918
contig00092 5014 5695 IncFIB(AP001918)_1 0/0 100.0 96.6 AP001918 IncFIB(AP001918)_1__AP001918
contig00059 13644 13785 IncI1_1_Alpha 0/0 100.0 100.0 AP005147 IncI1_1_Alpha_AP005147
ID042
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00073 400 632 Col(BS512)_1 0/0 100.0 100.0 NC_010656 Col(BS512)_1__NC_010656
contig00076 433 694 Col(MG828)_1 0/0 100.0 93.5 NC_008486 Col(MG828)_1__NC_008486
contig00061 641 794 Col156_1 0/0 100.0 96.1 NC_009781 Col156_1__NC_009781
contig00065 1519 1672 Col156_1 0/0 100.0 94.8 NC_009781 Col156_1__NC_009781
contig00033 19406 19560 IncB/O/K/Z_2 1/1 96.2 96.1 GU256641 IncB/O/K/Z_2__GU256641
ID049
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00094 1523 1713 ColpVC_1 0/0 99 96.9 JX133088 ColpVC_1__JX133088
contig00056 3365 3752 IncFIA_1 0/0 100 99.7 AP001918 IncFIA_1__AP001918
contig00056 21766 22447 IncFIB(AP001918)_1 0/0 100 98.4 AP001918 IncFIB(AP001918)_1__AP001918
contig00050 28294 28554 IncFII(pAMA1167-NDM-5)_1_pAMA1167-NDM-5 0/0 100 98.1 CP024805.1 IncFII(pAMA1167-NDM-5)_1_pAMA1167-NDM-5_CP024805.1
contig00071 4489 4862 IncX1_1 0/0 100 98.7 EU370913 IncX1_1__EU370913
ID051II
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00202 3429 3988 IncFIB(K)_1_Kpn3 0/0 100 98.9 JN233704 IncFIB(K)_1_Kpn3_JN233704
contig00009 32548 32986 IncFIB(Mar)_1_pNDM-Mar 0/0 100 100.0 JN420336 IncFIB(Mar)_1_pNDM-Mar_JN420336
contig00325 3308 3877 IncHI1B_1_pNDM-MAR 0/0 100 99.8 JN420336 IncHI1B_1_pNDM-MAR_JN420336
ID064
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00283 1357 1470 Col440I_1 0/0 100.0 97.4 CP023920.1 Col440I_1__CP023920.1
contig00127 10456 10842 IncFIA(HI1)_1_HI1 0/0 99.7 98.5 AF250878 IncFIA(HI1)_1_HI1_AF250878
contig00111 5108 5358 IncR_1 0/0 100.0 100.0 DQ449578 IncR_1__DQ449578
ID100
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00110 6383 6942 IncFIB(K)_1_Kpn3 0/0 100 98.9 JN233704 IncFIB(K)_1_Kpn3_JN233704
contig00094 10483 10733 IncR_1 0/0 100 99.6 DQ449578 IncR_1__DQ449578


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Virulence Factor Determination


Field Description
Contig Contig name where the gene was found
Start Start position of the gene within the contig
End End position of the gene within the contig
Gene Antibiotic resistance gene
Coverage Proportion (%) of the gene covered
Identity Proportion (%) of exact nucleotide matches
Accession Accesion number of the antibiotic resistance gene
Product Antibiotic resistance gene product


Select the sample

ID014
Contig Start End Strand Gene Coverage Identity Accession Product
contig00150 4851 5596 + entA 99.3 80.3 NP_752614 (entA) 23-dihydro-23-dihydroxybenzoate dehydrogenase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00150 3990 4841 + entB 99.2 82.5 NP_752613 (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00304 127 898 + fepC 94.6 81.1 NP_752606 (fepC) ferrienterobactin ABC transporter ATPase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00061 9298 10374 + ompA 100.0 83.2 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
contig00138 10711 11464 + yagV/ecpE 99.7 85.4 NP_286006 (yagV/ecpE) E. coli common pilus chaperone EcpE [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00138 9142 10785 + yagW/ecpD 100.0 88.9 NP_286007 (yagW/ecpD) polymerized tip adhesin of ECP fibers [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00138 6627 9152 + yagX/ecpC 100.0 87.5 NP_286008 (yagX/ecpC) E. coli common pilus usher EcpC [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00138 5933 6601 + yagY/ecpB 100.0 87.7 NP_286009 (yagY/ecpB) E. coli common pilus chaperone EcpB [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00138 5287 5870 + yagZ/ecpA 99.3 90.1 NP_286010 (yagZ/ecpA) E. coli common pilus structural subunit EcpA [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00138 4632 5212 + ykgK/ecpR 98.3 86.4 NP_286011 (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
ID022
Contig Start End Strand Gene Coverage Identity Accession Product
contig00196 1582 2327 + entA 99.2 80.6 NP_752614 (entA) 23-dihydro-23-dihydroxybenzoate dehydrogenase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00196 721 1572 + entB 99.2 81.8 NP_752613 (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00350 125 896 + fepC 94.6 80.8 NP_752606 (fepC) ferrienterobactin ABC transporter ATPase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00011 18128 19198 - ompA 100.0 83.7 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
contig00145 10710 11463 + yagV/ecpE 99.7 85.2 NP_286006 (yagV/ecpE) E. coli common pilus chaperone EcpE [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00145 9141 10784 + yagW/ecpD 100.0 88.8 NP_286007 (yagW/ecpD) polymerized tip adhesin of ECP fibers [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00145 6626 9151 + yagX/ecpC 100.0 87.5 NP_286008 (yagX/ecpC) E. coli common pilus usher EcpC [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00145 5932 6600 + yagY/ecpB 100.0 87.9 NP_286009 (yagY/ecpB) E. coli common pilus chaperone EcpB [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00145 5286 5869 + yagZ/ecpA 99.3 90.1 NP_286010 (yagZ/ecpA) E. coli common pilus structural subunit EcpA [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00145 4631 5211 + ykgK/ecpR 98.3 86.8 NP_286011 (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
ID030III
Contig Start End Strand Gene Coverage Identity Accession Product
contig00007 133050 133505 - csgB 99.8 83.6 NP_460114 (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00007 134260 134910 + csgD 100.0 81.3 NP_460113 (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00007 135329 135745 + csgF 99.0 81.2 NP_460111 (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00007 135772 136605 + csgG 100.0 83.5 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00017 69960 70706 - entA 100.0 95.7 NP_752614 (entA) 23-dihydro-23-dihydroxybenzoate dehydrogenase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00017 70706 71563 - entB 100.0 98.1 NP_752613 (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00017 73197 74384 - entC 100.0 97.9 NP_752611 (entC) isochorismate synthase 1 [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00017 89028 89798 + entD 100.0 94.3 NP_752599 (entD) phosphopantetheinyl transferase component of enterobactin synthase multienzyme complex [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00017 71577 73187 - entE 100.0 95.4 NP_752612 (entE) 23-dihydroxybenzoate-AMP ligase component of enterobactin synthase multienzyme complex [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00017 81247 85100 - entF 99.3 95.7 NP_752604 (entF) enterobactin synthase multienzyme complex component ATP-dependent [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00017 75707 76957 - entS 100.0 95.4 NP_752609 (entS) enterobactin exporter iron-regulated [enterobactin (IA019)] [Escherichia coli CFT073]
contig00001 175269 177170 + espL1 100.0 97.3 NP_288154 (espL1) Type III secretion system effector espL1 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00010 52326 53381 + espR1 83.8 93.9 NP_287686 (espR1) Type III secretion system effector espR1 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00008 132410 133830 + espX1 99.9 95.2 NP_285716 (espX1) Type III secretion system effector EspX1 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00035 33404 34984 - espX4 99.9 93.3 NP_290672 (espX4) Type III secretion system effector EspX4 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00019 69406 70698 + espX5 100.0 95.7 NP_290699 (espX5) Type III secretion system effector EspX5 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00058 15815 20063 - fdeC 99.9 94.2 YP_002390132 (fdeC) adhesin FdeC [FdeC (VF0506)] [Escherichia coli O45:K1:H7 str. S88]
contig00017 86763 89003 + fepA 100.0 96.8 NP_752600 (fepA) ferrienterobactin outer membrane transporter [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00017 74747 75703 + fepB 100.0 97.5 NP_752610 (fepB) ferrienterobactin ABC transporter periplasmic binding protein [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00017 79058 79873 + fepC 100.0 97.3 NP_752606 (fepC) ferrienterobactin ABC transporter ATPase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00017 77056 78072 + fepD 100.0 96.2 NP_752608 (fepD) ferrienterobactin ABC transporter permease [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00017 78069 79061 + fepG 100.0 94.0 NP_752607 (fepG) iron-enterobactin ABC transporter permease [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00017 85318 86520 - fes 100.0 96.6 NP_752602 (fes) enterobactin/ferric enterobactin esterase [enterobactin (IA019)] [Escherichia coli CFT073]
contig00055 24379 25290 - fimH 100.0 97.6 NP_757248 (fimH) FimH protein precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00087 455 817 + gtrA 100.0 90.4 NP_706257 (gtrA) bactoprenol-linked glucose translocase/flippase [LPS (VF0124)] [Shigella flexneri 2a str. 301]
contig00004 139745 140785 - ompA 100.0 98.1 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
ID030II
Contig Start End Strand Gene Coverage Identity Accession Product
contig00032 15959 17387 + aslA 100.0 97.3 AAG10151 (aslA) putative arylsulfatase [AslA (VF0238)] [Escherichia coli O18:K1:H7 str. RS218]
contig00011 38568 39560 - chuU 100.0 98.6 NP_756179 (chuU) heme permease protein ChuU [Chu (VF0227)] [Escherichia coli CFT073]
contig00011 37801 38601 - chuV 100.0 98.4 NP_756180 (chuV) ATP-binding hydrophilic protein ChuV [Chu (VF0227)] [Escherichia coli CFT073]
contig00011 40739 42076 - chuW 100.0 96.8 NP_756176 (chuW) Putative oxygen independent coproporphyrinogen III oxidase [Chu (VF0227)] [Escherichia coli CFT073]
contig00011 39609 40232 - chuY 100.0 97.0 NP_756178 (chuY) ChuY [Chu (VF0227)] [Escherichia coli CFT073]
contig00055 9492 9947 + csgB 99.8 83.8 NP_460114 (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00055 8087 8737 - csgD 100.0 81.3 NP_460113 (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00055 7252 7668 - csgF 99.0 81.0 NP_460111 (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00055 6392 7225 - csgG 100.0 83.3 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00012 56549 57295 - entA 100.0 95.8 NP_752614 (entA) 23-dihydro-23-dihydroxybenzoate dehydrogenase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00012 57295 58152 - entB 100.0 97.2 NP_752613 (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00012 59786 60973 - entC 100.0 98.2 NP_752611 (entC) isochorismate synthase 1 [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00012 75430 76200 + entD 100.0 93.8 NP_752599 (entD) phosphopantetheinyl transferase component of enterobactin synthase multienzyme complex [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00012 58166 59776 - entE 100.0 97.6 NP_752612 (entE) 23-dihydroxybenzoate-AMP ligase component of enterobactin synthase multienzyme complex [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00012 67649 71502 - entF 99.3 95.9 NP_752604 (entF) enterobactin synthase multienzyme complex component ATP-dependent [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00012 62110 63360 - entS 100.0 95.7 NP_752609 (entS) enterobactin exporter iron-regulated [enterobactin (IA019)] [Escherichia coli CFT073]
contig00002 88059 89957 - espL1 100.0 96.4 NP_288154 (espL1) Type III secretion system effector espL1 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00005 6786 8972 - espL4 100.0 97.1 NP_290644 (espL4) Type III secretion system effector EspL4 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00038 14350 15600 - espR1 99.3 94.2 NP_287686 (espR1) Type III secretion system effector espR1 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00007 106056 107477 + espX1 100.0 94.2 NP_285716 (espX1) Type III secretion system effector EspX1 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00016 23867 25879 - espX2 100.0 96.7 NP_286562 (espX2) Type III secretion system effector EspX2 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00005 41200 42780 + espX4 100.0 94.3 NP_290672 (espX4) Type III secretion system effector EspX4 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00005 72291 73583 - espX5 100.0 95.6 NP_290699 (espX5) Type III secretion system effector EspX5 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00007 66632 67351 - espY1 95.6 88.6 NP_285753 (espY1) Type III secretion system effector EspY1 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00007 49652 50221 - espY2 100.0 94.0 NP_285765 (espY2) Type III secretion system effector EspY2 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00006 10532 12103 + espY3 100.0 95.4 NP_286160 (espY3) Type III secretion system effector EspY3 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00017 39417 41825 + espY4 100.0 92.7 NP_290352 (espY4) Type III secretion system effector EspY4 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00006 136337 140578 - fdeC 99.8 91.3 YP_002390132 (fdeC) adhesin FdeC [FdeC (VF0506)] [Escherichia coli O45:K1:H7 str. S88]
contig00012 73165 75405 + fepA 100.0 97.2 NP_752600 (fepA) ferrienterobactin outer membrane transporter [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00012 61150 62106 + fepB 100.0 97.0 NP_752610 (fepB) ferrienterobactin ABC transporter periplasmic binding protein [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00012 65461 66276 + fepC 100.0 97.3 NP_752606 (fepC) ferrienterobactin ABC transporter ATPase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00012 63459 64475 + fepD 100.0 95.7 NP_752608 (fepD) ferrienterobactin ABC transporter permease [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00012 64472 65464 + fepG 100.0 95.1 NP_752607 (fepG) iron-enterobactin ABC transporter permease [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00012 71720 72922 - fes 100.0 97.4 NP_752602 (fes) enterobactin/ferric enterobactin esterase [enterobactin (IA019)] [Escherichia coli CFT073]
contig00001 34912 35742 - gspC 100.0 95.4 YP_404599 (gspC) general secretion pathway protein C [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00001 32822 34672 - gspD 100.0 95.5 YP_404600 (gspD) general secretion pathway protein D [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00001 31329 32822 - gspE 100.0 95.3 YP_404601 (gspE) general secretion pathway protein E [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00001 30130 31329 - gspF 100.0 91.5 YP_404602 (gspF) general secretion pathway protein F [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00001 29634 30089 - gspG 100.0 97.4 YP_404603 (gspG) general secretion pathway protein G [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00001 29067 29597 - gspH 100.0 96.2 YP_404604 (gspH) general secretion pathway protein H [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00001 28699 29070 - gspI 100.0 94.9 YP_404605 (gspI) general secretion pathway protein I [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00001 28097 28666 - gspJ 100.0 94.2 YP_404606 (gspJ) general secretion pathway protein J [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00001 27123 28100 - gspK 100.0 96.7 YP_404607 (gspK) general secretion pathway protein K [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00001 25948 26808 - gspL 100.0 95.1 YP_404608 (gspL) general secretion pathway protein L [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00001 25411 25832 - gspM 99.8 93.4 YP_404609 (gspM) general secretion pathway protein M [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00045 33671 34900 + iroD 100.0 99.6 NP_753166 (iroD) esterase [Salmochelin (IA013)] [Escherichia coli CFT073]
contig00045 34985 35942 + iroE 100.0 99.0 NP_753165 (iroE) esterase [Salmochelin (IA013)] [Escherichia coli CFT073]
contig00001 10717 12393 + kpsD 100.0 99.5 AAA21682 (kpsD) KpsD [K1 capsule (VF0239)] [Escherichia coli O18:K1:H7 str. RS218]
contig00001 23461 24237 - kpsM 100.0 94.1 AAA24046 (kpsM) KpsM [K1 capsule (VF0239)] [Escherichia coli O18:K1:H7 str. RS218]
contig00028 26052 27104 - ompA 100.0 95.2 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
contig00090 961 1512 + papX 100.0 97.5 NP_755457 (papX) PapX protein regulates flagellum synthesis to repress motility [P fimbriae (CVF425)] [Escherichia coli CFT073]
contig00031 34913 39031 - pic 100.0 100.0 YP_006098864 (pic) Pic serine protease precursor autotransporter [Pic (VF0218)] [Escherichia coli O44:H18 042]
contig00011 43694 45676 + shuA 100.0 98.9 YP_405019 (shuA) outer membrane heme/hemoglobin receptor ShuA [Shu (VF0256)] [Shigella dysenteriae Sd197]
contig00011 45725 46753 + shuS 100.0 96.7 YP_405020 (shuS) heme/hemoglobin transport protein ShuS [Shu (VF0256)] [Shigella dysenteriae Sd197]
contig00011 42096 43088 - shuT 100.0 97.8 YP_405017 (shuT) periplasmic binding protein ShuT [Shu (VF0256)] [Shigella dysenteriae Sd197]
contig00011 40232 40726 - shuX 100.0 96.6 YP_405016 (shuX) shu locus protein ShuX [Shu (VF0256)] [Shigella dysenteriae Sd197]
contig00006 155988 156741 + yagV/ecpE 99.7 96.8 NP_286006 (yagV/ecpE) E. coli common pilus chaperone EcpE [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00006 154421 156064 + yagW/ecpD 100.0 98.2 NP_286007 (yagW/ecpD) polymerized tip adhesin of ECP fibers [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00006 151906 154431 + yagX/ecpC 100.0 98.8 NP_286008 (yagX/ecpC) E. coli common pilus usher EcpC [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00006 151212 151880 + yagY/ecpB 100.0 97.6 NP_286009 (yagY/ecpB) E. coli common pilus chaperone EcpB [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00006 150567 151154 + yagZ/ecpA 100.0 99.3 NP_286010 (yagZ/ecpA) E. coli common pilus structural subunit EcpA [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00006 149903 150493 + ykgK/ecpR 100.0 98.8 NP_286011 (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
ID030I
Contig Start End Strand Gene Coverage Identity Accession Product
contig00022 33699 35127 + aslA 100.0 98.5 AAG10151 (aslA) putative arylsulfatase [AslA (VF0238)] [Escherichia coli O18:K1:H7 str. RS218]
contig00057 17402 19348 + chuA 100.0 99.7 NP_756170 (chuA) Outer membrane heme/hemoglobin receptor ChuA [Chu (VF0227)] [Escherichia coli CFT073]
contig00057 19397 20425 + chuS 100.0 99.5 NP_756169 (chuS) heme oxygenase ChuS [Chu (VF0227)] [Escherichia coli CFT073]
contig00057 15768 16760 - chuT 100.0 99.7 NP_756175 (chuT) periplasmic heme-binding protein ChuT [Chu (VF0227)] [Escherichia coli CFT073]
contig00057 12240 13232 - chuU 100.0 99.5 NP_756179 (chuU) heme permease protein ChuU [Chu (VF0227)] [Escherichia coli CFT073]
contig00057 11473 12273 - chuV 100.0 99.8 NP_756180 (chuV) ATP-binding hydrophilic protein ChuV [Chu (VF0227)] [Escherichia coli CFT073]
contig00057 14411 15748 - chuW 100.0 99.1 NP_756176 (chuW) Putative oxygen independent coproporphyrinogen III oxidase [Chu (VF0227)] [Escherichia coli CFT073]
contig00057 13904 14398 - chuX 100.0 100.0 NP_756177 (chuX) putative heme-binding protein ChuX [Chu (VF0227)] [Escherichia coli CFT073]
contig00057 13281 13904 - chuY 100.0 98.4 NP_756178 (chuY) ChuY [Chu (VF0227)] [Escherichia coli CFT073]
contig00005 134766 135221 + csgB 99.8 83.6 NP_460114 (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00005 133363 134013 - csgD 100.0 81.3 NP_460113 (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00005 132528 132944 - csgF 99.0 80.8 NP_460111 (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00005 131668 132501 - csgG 100.0 83.3 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00021 19049 19795 - entA 100.0 98.4 NP_752614 (entA) 23-dihydro-23-dihydroxybenzoate dehydrogenase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00021 19795 20652 - entB 100.0 99.2 NP_752613 (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00021 22286 23473 - entC 100.0 99.7 NP_752611 (entC) isochorismate synthase 1 [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00021 37931 38592 + entD 85.9 92.8 NP_752599 (entD) phosphopantetheinyl transferase component of enterobactin synthase multienzyme complex [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00021 20666 22276 - entE 100.0 99.1 NP_752612 (entE) 23-dihydroxybenzoate-AMP ligase component of enterobactin synthase multienzyme complex [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00021 30150 34003 - entF 99.3 98.4 NP_752604 (entF) enterobactin synthase multienzyme complex component ATP-dependent [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00021 24610 25860 - entS 100.0 98.8 NP_752609 (entS) enterobactin exporter iron-regulated [enterobactin (IA019)] [Escherichia coli CFT073]
contig00023 22805 27055 - fdeC 100.0 99.6 YP_002390132 (fdeC) adhesin FdeC [FdeC (VF0506)] [Escherichia coli O45:K1:H7 str. S88]
contig00021 35666 37906 + fepA 100.0 98.9 NP_752600 (fepA) ferrienterobactin outer membrane transporter [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00021 23650 24606 + fepB 100.0 99.8 NP_752610 (fepB) ferrienterobactin ABC transporter periplasmic binding protein [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00021 27961 28776 + fepC 100.0 99.4 NP_752606 (fepC) ferrienterobactin ABC transporter ATPase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00021 25959 26975 + fepD 100.0 99.5 NP_752608 (fepD) ferrienterobactin ABC transporter permease [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00021 26972 27964 + fepG 100.0 99.8 NP_752607 (fepG) iron-enterobactin ABC transporter permease [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00021 34221 35423 - fes 100.0 99.8 NP_752602 (fes) enterobactin/ferric enterobactin esterase [enterobactin (IA019)] [Escherichia coli CFT073]
contig00009 129380 129985 - fimA 100.0 92.2 NP_757241 (fimA) Type-1 fimbrial protein A chain precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00114 1112 1714 - fimB 100.0 98.2 NP_757239 (fimB) Type 1 fimbriae Regulatory protein fimB [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00009 128014 128739 - fimC 100.0 98.5 NP_757243 (fimC) Chaperone protein fimC precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00009 125311 127947 - fimD 100.0 98.3 NP_757244 (fimD) Outer membrane usher protein fimD precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00114 38 634 - fimE 100.0 98.7 NP_757240 (fimE) Type 1 fimbriae Regulatory protein fimE [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00009 124771 125304 - fimF 100.0 97.4 NP_757245 (fimF) FimF protein precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00009 124255 124758 - fimG 100.0 98.0 NP_757247 (fimG) FimG protein precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00009 123333 124244 - fimH 100.0 97.2 NP_757248 (fimH) FimH protein precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00009 128776 129315 - fimI 100.0 98.3 NP_757242 (fimI) Fimbrin-like protein fimI precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00004 77994 80015 - fyuA 100.0 100.0 NP_405467 (fyuA) pesticin/yersiniabactin receptor protein [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00002 187628 188458 + gspC 100.0 93.9 YP_404599 (gspC) general secretion pathway protein C [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00002 188698 190548 + gspD 100.0 96.1 YP_404600 (gspD) general secretion pathway protein D [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00002 190548 192041 + gspE 100.0 94.9 YP_404601 (gspE) general secretion pathway protein E [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00002 192041 193240 + gspF 100.0 94.2 YP_404602 (gspF) general secretion pathway protein F [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00002 193281 193736 + gspG 100.0 96.0 YP_404603 (gspG) general secretion pathway protein G [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00002 193773 194303 + gspH 100.0 94.7 YP_404604 (gspH) general secretion pathway protein H [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00002 194300 194671 + gspI 100.0 92.2 YP_404605 (gspI) general secretion pathway protein I [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00002 194704 195273 + gspJ 100.0 94.4 YP_404606 (gspJ) general secretion pathway protein J [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00002 195270 196247 + gspK 100.0 96.6 YP_404607 (gspK) general secretion pathway protein K [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00002 196562 197422 + gspL 100.0 94.8 YP_404608 (gspL) general secretion pathway protein L [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00002 197538 197959 + gspM 99.8 93.6 YP_404609 (gspM) general secretion pathway protein M [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00004 83624 93115 - irp1 100.0 99.3 NP_405471 (irp1) yersiniabactin biosynthetic protein Irp1 [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00004 93205 99309 - irp2 100.0 98.9 NP_405472 (irp2) yersiniabactin biosynthetic protein Irp2 [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00065 10165 11946 + iucA 100.0 99.8 NP_709454 (iucA) aerobactin synthesis protein IucA [Aerobactin (VF0123)] [Shigella flexneri 2a str. 301]
contig00065 11947 12894 + iucB 100.0 99.8 NP_709455 (iucB) aerobactin synthesis protein IucB [Aerobactin (VF0123)] [Shigella flexneri 2a str. 301]
contig00065 12894 14636 + iucC 100.0 98.2 NP_755500 (iucC) aerobactin siderophore biosynthesis protein IucC [Aerobactin (VF0229)] [Escherichia coli CFT073]
contig00065 14633 15954 + iucD 98.8 96.3 NP_755499 (iucD) L-lysine 6-monooxygenase IucD [Aerobactin (VF0229)] [Escherichia coli CFT073]
contig00065 15892 18193 + iutA 100.0 88.4 NP_755498 (iutA) ferric aerobactin receptor precusor IutA [Aerobactin (VF0229)] [Escherichia coli CFT073]
contig00002 211113 212789 - kpsD 100.0 99.0 AAA21682 (kpsD) KpsD [K1 capsule (VF0239)] [Escherichia coli O18:K1:H7 str. RS218]
contig00002 199019 199795 + kpsM 100.0 99.9 AAA24046 (kpsM) KpsM [K1 capsule (VF0239)] [Escherichia coli O18:K1:H7 str. RS218]
contig00002 199792 200451 + kpsT 100.0 100.0 AAA24047 (kpsT) KpsT [K1 capsule (VF0239)] [Escherichia coli O18:K1:H7 str. RS218]
contig00005 63657 64697 - ompA 100.0 99.5 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
contig00065 747 1060 - papB 99.7 98.4 (papB) regulatory protein PapB [P fimbriae (VF0220)] [Escherichia coli CFT073]
contig00065 1465 1698 + papI 100.0 94.9 NP_755468 (papI) regulatory protein PapI [P fimbriae (VF0220)] [Escherichia coli CFT073]
contig00150 256 807 + papX 100.0 97.5 NP_755457 (papX) PapX protein regulates flagellum synthesis to repress motility [P fimbriae (CVF425)] [Escherichia coli CFT073]
contig00065 19128 23028 + sat 100.0 99.5 NP_755494 (sat) Aecreted auto transpoter toxin [Sat (VF0231)] [Escherichia coli CFT073]
contig00084 8438 9576 + senB 99.9 99.7 YP_406304 (senB) enterotoxin [ShET2 (VF0258)] [Shigella flexneri 2a str. 301]
contig00023 46763 50894 + vat 100.0 99.7 NP_752330 (vat) Haemoglobin protease [Tsh (VF0233)] [Escherichia coli CFT073]
contig00023 42393 43146 + yagV/ecpE 99.7 98.4 NP_286006 (yagV/ecpE) E. coli common pilus chaperone EcpE [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00023 40826 42469 + yagW/ecpD 100.0 99.2 NP_286007 (yagW/ecpD) polymerized tip adhesin of ECP fibers [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00023 38311 40836 + yagX/ecpC 100.0 97.7 NP_286008 (yagX/ecpC) E. coli common pilus usher EcpC [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00023 37617 38285 + yagY/ecpB 100.0 98.1 NP_286009 (yagY/ecpB) E. coli common pilus chaperone EcpB [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00023 36973 37560 + yagZ/ecpA 100.0 98.5 NP_286010 (yagZ/ecpA) E. coli common pilus structural subunit EcpA [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00004 99500 100459 - ybtA 100.0 99.5 NP_405473 (ybtA) transcriptional regulator YbtA [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00004 80146 81723 - ybtE 100.0 99.8 NP_405468 (ybtE) yersiniabactin siderophore biosynthetic protein [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00004 100626 102428 + ybtP 100.0 99.6 NP_405474 (ybtP) lipoprotein inner membrane ABC-transporter [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00004 102415 104217 + ybtQ 100.0 99.8 NP_405475 (ybtQ) inner membrane ABC-transporter YbtQ [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00004 105518 106822 + ybtS 100.0 99.8 NP_405477 (ybtS) salicylate synthase Irp9 [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00004 81727 82530 - ybtT 100.0 99.5 NP_405469 (ybtT) yersiniabactin biosynthetic protein YbtT [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00004 82527 83627 - ybtU 100.0 99.7 NP_405470 (ybtU) yersiniabactin biosynthetic protein YbtU [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00004 104210 105490 + ybtX 100.0 99.6 NP_405476 (ybtX) putative signal transducer [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00023 36308 36898 + ykgK/ecpR 100.0 99.3 NP_286011 (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
ID042
Contig Start End Strand Gene Coverage Identity Accession Product
contig00020 74837 76265 + aslA 100.0 98.5 AAG10151 (aslA) putative arylsulfatase [AslA (VF0238)] [Escherichia coli O18:K1:H7 str. RS218]
contig00005 177711 179657 - chuA 100.0 99.7 NP_756170 (chuA) Outer membrane heme/hemoglobin receptor ChuA [Chu (VF0227)] [Escherichia coli CFT073]
contig00005 176634 177662 - chuS 100.0 99.5 NP_756169 (chuS) heme oxygenase ChuS [Chu (VF0227)] [Escherichia coli CFT073]
contig00005 180299 181291 + chuT 100.0 99.7 NP_756175 (chuT) periplasmic heme-binding protein ChuT [Chu (VF0227)] [Escherichia coli CFT073]
contig00005 183827 184819 + chuU 100.0 99.5 NP_756179 (chuU) heme permease protein ChuU [Chu (VF0227)] [Escherichia coli CFT073]
contig00005 184786 185586 + chuV 100.0 99.8 NP_756180 (chuV) ATP-binding hydrophilic protein ChuV [Chu (VF0227)] [Escherichia coli CFT073]
contig00005 181311 182648 + chuW 100.0 99.1 NP_756176 (chuW) Putative oxygen independent coproporphyrinogen III oxidase [Chu (VF0227)] [Escherichia coli CFT073]
contig00005 182661 183155 + chuX 100.0 100.0 NP_756177 (chuX) putative heme-binding protein ChuX [Chu (VF0227)] [Escherichia coli CFT073]
contig00005 183155 183778 + chuY 100.0 98.4 NP_756178 (chuY) ChuY [Chu (VF0227)] [Escherichia coli CFT073]
contig00001 199382 199837 + csgB 99.8 83.6 NP_460114 (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00001 197979 198629 - csgD 100.0 81.3 NP_460113 (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00001 197144 197560 - csgF 99.0 80.8 NP_460111 (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00001 196284 197117 - csgG 100.0 83.3 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00009 131850 132596 - entA 100.0 98.4 NP_752614 (entA) 23-dihydro-23-dihydroxybenzoate dehydrogenase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00009 132596 133453 - entB 100.0 99.2 NP_752613 (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00009 135087 136274 - entC 100.0 99.7 NP_752611 (entC) isochorismate synthase 1 [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00009 150732 151393 + entD 85.9 92.8 NP_752599 (entD) phosphopantetheinyl transferase component of enterobactin synthase multienzyme complex [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00009 133467 135077 - entE 100.0 99.1 NP_752612 (entE) 23-dihydroxybenzoate-AMP ligase component of enterobactin synthase multienzyme complex [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00009 142951 146804 - entF 99.3 98.4 NP_752604 (entF) enterobactin synthase multienzyme complex component ATP-dependent [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00009 137411 138661 - entS 100.0 98.8 NP_752609 (entS) enterobactin exporter iron-regulated [enterobactin (IA019)] [Escherichia coli CFT073]
contig00026 22805 27055 - fdeC 100.0 99.6 YP_002390132 (fdeC) adhesin FdeC [FdeC (VF0506)] [Escherichia coli O45:K1:H7 str. S88]
contig00009 148467 150707 + fepA 100.0 98.9 NP_752600 (fepA) ferrienterobactin outer membrane transporter [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00009 136451 137407 + fepB 100.0 99.8 NP_752610 (fepB) ferrienterobactin ABC transporter periplasmic binding protein [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00009 140762 141577 + fepC 100.0 99.4 NP_752606 (fepC) ferrienterobactin ABC transporter ATPase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00009 138760 139776 + fepD 100.0 99.5 NP_752608 (fepD) ferrienterobactin ABC transporter permease [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00009 139773 140765 + fepG 100.0 99.8 NP_752607 (fepG) iron-enterobactin ABC transporter permease [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00009 147022 148224 - fes 100.0 99.8 NP_752602 (fes) enterobactin/ferric enterobactin esterase [enterobactin (IA019)] [Escherichia coli CFT073]
contig00003 218092 218697 - fimA 100.0 92.2 NP_757241 (fimA) Type-1 fimbrial protein A chain precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00030 1416 2018 - fimB 100.0 98.2 NP_757239 (fimB) Type 1 fimbriae Regulatory protein fimB [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00003 216726 217451 - fimC 100.0 98.5 NP_757243 (fimC) Chaperone protein fimC precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00003 214023 216659 - fimD 100.0 98.3 NP_757244 (fimD) Outer membrane usher protein fimD precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00030 342 938 - fimE 100.0 98.7 NP_757240 (fimE) Type 1 fimbriae Regulatory protein fimE [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00003 213483 214016 - fimF 100.0 97.4 NP_757245 (fimF) FimF protein precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00003 212967 213470 - fimG 100.0 98.0 NP_757247 (fimG) FimG protein precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00003 212045 212956 - fimH 100.0 97.2 NP_757248 (fimH) FimH protein precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00003 217488 218027 - fimI 100.0 98.3 NP_757242 (fimI) Fimbrin-like protein fimI precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00034 30465 32486 + fyuA 100.0 100.0 NP_405467 (fyuA) pesticin/yersiniabactin receptor protein [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00034 17365 26856 + irp1 100.0 99.3 NP_405471 (irp1) yersiniabactin biosynthetic protein Irp1 [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00034 11171 17275 + irp2 100.0 98.9 NP_405472 (irp2) yersiniabactin biosynthetic protein Irp2 [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00051 1 1702 + iucA 95.5 99.9 NP_709454 (iucA) aerobactin synthesis protein IucA [Aerobactin (VF0123)] [Shigella flexneri 2a str. 301]
contig00051 1703 2650 + iucB 100.0 99.8 NP_709455 (iucB) aerobactin synthesis protein IucB [Aerobactin (VF0123)] [Shigella flexneri 2a str. 301]
contig00051 2650 4392 + iucC 100.0 98.2 NP_755500 (iucC) aerobactin siderophore biosynthesis protein IucC [Aerobactin (VF0229)] [Escherichia coli CFT073]
contig00051 4389 5710 + iucD 98.8 96.3 NP_755499 (iucD) L-lysine 6-monooxygenase IucD [Aerobactin (VF0229)] [Escherichia coli CFT073]
contig00051 5648 7949 + iutA 100.0 88.4 NP_755498 (iutA) ferric aerobactin receptor precusor IutA [Aerobactin (VF0229)] [Escherichia coli CFT073]
contig00016 3855 5344 + kpsD 88.8 99.3 AAA21682 (kpsD) KpsD [K1 capsule (VF0239)] [Escherichia coli O18:K1:H7 str. RS218]
contig00001 128273 129313 - ompA 100.0 99.5 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
contig00053 749 1062 - papB 99.7 98.4 (papB) regulatory protein PapB [P fimbriae (VF0220)] [Escherichia coli CFT073]
contig00053 1467 1700 + papI 100.0 94.9 NP_755468 (papI) regulatory protein PapI [P fimbriae (VF0220)] [Escherichia coli CFT073]
contig00078 256 807 + papX 100.0 97.5 NP_755457 (papX) PapX protein regulates flagellum synthesis to repress motility [P fimbriae (CVF425)] [Escherichia coli CFT073]
contig00051 8884 12784 + sat 100.0 99.5 NP_755494 (sat) Aecreted auto transpoter toxin [Sat (VF0231)] [Escherichia coli CFT073]
contig00026 46763 50893 + vat 100.0 99.7 NP_752330 (vat) Haemoglobin protease [Tsh (VF0233)] [Escherichia coli CFT073]
contig00026 42393 43146 + yagV/ecpE 99.7 98.4 NP_286006 (yagV/ecpE) E. coli common pilus chaperone EcpE [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00026 40826 42469 + yagW/ecpD 100.0 99.2 NP_286007 (yagW/ecpD) polymerized tip adhesin of ECP fibers [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00026 38311 40836 + yagX/ecpC 100.0 97.7 NP_286008 (yagX/ecpC) E. coli common pilus usher EcpC [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00026 37617 38285 + yagY/ecpB 100.0 98.1 NP_286009 (yagY/ecpB) E. coli common pilus chaperone EcpB [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00026 36973 37560 + yagZ/ecpA 100.0 98.5 NP_286010 (yagZ/ecpA) E. coli common pilus structural subunit EcpA [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00034 10021 10980 + ybtA 100.0 99.5 NP_405473 (ybtA) transcriptional regulator YbtA [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00034 28757 30334 + ybtE 100.0 99.8 NP_405468 (ybtE) yersiniabactin siderophore biosynthetic protein [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00034 8052 9854 - ybtP 100.0 99.6 NP_405474 (ybtP) lipoprotein inner membrane ABC-transporter [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00034 6263 8065 - ybtQ 100.0 99.8 NP_405475 (ybtQ) inner membrane ABC-transporter YbtQ [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00034 3658 4962 - ybtS 100.0 99.8 NP_405477 (ybtS) salicylate synthase Irp9 [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00034 27950 28753 + ybtT 100.0 99.5 NP_405469 (ybtT) yersiniabactin biosynthetic protein YbtT [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00034 26853 27953 + ybtU 100.0 99.7 NP_405470 (ybtU) yersiniabactin biosynthetic protein YbtU [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00034 4990 6270 - ybtX 100.0 99.6 NP_405476 (ybtX) putative signal transducer [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00026 36308 36898 + ykgK/ecpR 100.0 99.3 NP_286011 (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
ID049
Contig Start End Strand Gene Coverage Identity Accession Product
contig00018 49272 50700 + aslA 100.0 93.6 AAG10151 (aslA) putative arylsulfatase [AslA (VF0238)] [Escherichia coli O18:K1:H7 str. RS218]
contig00015 6357 6812 + csgB 99.8 83.8 NP_460114 (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00015 4952 5602 - csgD 100.0 81.1 NP_460113 (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00015 4117 4533 - csgF 99.0 81.2 NP_460111 (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00015 3257 4090 - csgG 100.0 83.5 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00010 99075 99821 - entA 100.0 95.7 NP_752614 (entA) 23-dihydro-23-dihydroxybenzoate dehydrogenase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00010 99821 100678 - entB 100.0 98.1 NP_752613 (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00010 102312 103499 - entC 100.0 97.9 NP_752611 (entC) isochorismate synthase 1 [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00010 118143 118913 + entD 100.0 95.2 NP_752599 (entD) phosphopantetheinyl transferase component of enterobactin synthase multienzyme complex [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00010 100692 102302 - entE 100.0 95.5 NP_752612 (entE) 23-dihydroxybenzoate-AMP ligase component of enterobactin synthase multienzyme complex [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00010 110362 114215 - entF 99.3 95.7 NP_752604 (entF) enterobactin synthase multienzyme complex component ATP-dependent [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00010 104822 106072 - entS 100.0 95.4 NP_752609 (entS) enterobactin exporter iron-regulated [enterobactin (IA019)] [Escherichia coli CFT073]
contig00021 14515 16414 + espL1 100.0 97.6 NP_288154 (espL1) Type III secretion system effector espL1 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00039 37583 39769 + espL4 100.0 97.3 NP_290644 (espL4) Type III secretion system effector EspL4 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00044 25267 26320 + espR1 83.7 93.8 NP_287686 (espR1) Type III secretion system effector espR1 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00007 25291 26425 - espR4 99.5 84.3 NP_288396 (espR4) Type III secretion system effector espR4 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00003 50504 51925 - espX1 100.0 93.2 NP_285716 (espX1) Type III secretion system effector EspX1 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00039 7787 9367 - espX4 99.9 93.2 NP_290672 (espX4) Type III secretion system effector EspX4 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00030 42324 43616 + espX5 100.0 97.1 NP_290699 (espX5) Type III secretion system effector EspX5 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00003 90075 90886 + espY1 99.9 87.0 NP_285753 (espY1) Type III secretion system effector EspY1 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00058 17762 22010 - fdeC 99.9 94.2 YP_002390132 (fdeC) adhesin FdeC [FdeC (VF0506)] [Escherichia coli O45:K1:H7 str. S88]
contig00010 115878 118118 + fepA 100.0 96.7 NP_752600 (fepA) ferrienterobactin outer membrane transporter [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00010 103862 104818 + fepB 100.0 97.5 NP_752610 (fepB) ferrienterobactin ABC transporter periplasmic binding protein [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00010 108173 108988 + fepC 100.0 97.3 NP_752606 (fepC) ferrienterobactin ABC transporter ATPase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00010 106171 107187 + fepD 100.0 96.1 NP_752608 (fepD) ferrienterobactin ABC transporter permease [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00010 107184 108176 + fepG 100.0 94.1 NP_752607 (fepG) iron-enterobactin ABC transporter permease [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00010 114433 115635 - fes 100.0 96.7 NP_752602 (fes) enterobactin/ferric enterobactin esterase [enterobactin (IA019)] [Escherichia coli CFT073]
contig00048 25238 25849 - fimA 100.0 88.6 NP_757241 (fimA) Type-1 fimbrial protein A chain precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00048 27347 27949 - fimB 100.0 98.2 NP_757239 (fimB) Type 1 fimbriae Regulatory protein fimB [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00048 23872 24597 - fimC 100.0 98.9 NP_757243 (fimC) Chaperone protein fimC precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00048 21169 23805 - fimD 100.0 98.6 NP_757244 (fimD) Outer membrane usher protein fimD precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00048 26276 26870 - fimE 99.7 99.3 NP_757240 (fimE) Type 1 fimbriae Regulatory protein fimE [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00048 20629 21162 - fimF 100.0 97.9 NP_757245 (fimF) FimF protein precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00048 20113 20616 - fimG 100.0 97.8 NP_757247 (fimG) FimG protein precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00048 19191 20102 - fimH 100.0 97.4 NP_757248 (fimH) FimH protein precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00048 24634 25173 - fimI 100.0 98.7 NP_757242 (fimI) Fimbrin-like protein fimI precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00007 86337 88358 + fyuA 100.0 99.9 NP_405467 (fyuA) pesticin/yersiniabactin receptor protein [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00004 48251 49081 - gspC 100.0 94.7 YP_404599 (gspC) general secretion pathway protein C [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00004 46161 48011 - gspD 100.0 96.1 YP_404600 (gspD) general secretion pathway protein D [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00004 44668 46161 - gspE 100.0 96.9 YP_404601 (gspE) general secretion pathway protein E [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00004 43469 44668 - gspF 100.0 96.0 YP_404602 (gspF) general secretion pathway protein F [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00004 42973 43428 - gspG 100.0 95.0 YP_404603 (gspG) general secretion pathway protein G [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00004 42407 42936 - gspH 99.8 94.9 YP_404604 (gspH) general secretion pathway protein H [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00004 42039 42410 - gspI 100.0 95.2 YP_404605 (gspI) general secretion pathway protein I [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00004 41437 42006 - gspJ 100.0 96.7 YP_404606 (gspJ) general secretion pathway protein J [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00004 40463 41440 - gspK 100.0 97.0 YP_404607 (gspK) general secretion pathway protein K [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00004 39288 40148 - gspL 100.0 97.0 YP_404608 (gspL) general secretion pathway protein L [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00004 38750 39172 - gspM 100.0 98.3 YP_404609 (gspM) general secretion pathway protein M [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00007 73237 82728 + irp1 100.0 99.3 NP_405471 (irp1) yersiniabactin biosynthetic protein Irp1 [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00007 67042 73149 + irp2 100.0 99.8 NP_405472 (irp2) yersiniabactin biosynthetic protein Irp2 [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00002 145353 146393 - ompA 100.0 98.1 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
contig00007 65892 66851 + ybtA 100.0 99.5 NP_405473 (ybtA) transcriptional regulator YbtA [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00007 84629 86206 + ybtE 100.0 99.8 NP_405468 (ybtE) yersiniabactin siderophore biosynthetic protein [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00007 63923 65725 - ybtP 100.0 99.6 NP_405474 (ybtP) lipoprotein inner membrane ABC-transporter [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00007 62134 63936 - ybtQ 100.0 99.6 NP_405475 (ybtQ) inner membrane ABC-transporter YbtQ [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00007 59529 60833 - ybtS 100.0 99.9 NP_405477 (ybtS) salicylate synthase Irp9 [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00007 83822 84625 + ybtT 100.0 99.8 NP_405469 (ybtT) yersiniabactin biosynthetic protein YbtT [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00007 82725 83825 + ybtU 100.0 100.0 NP_405470 (ybtU) yersiniabactin biosynthetic protein YbtU [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00007 60861 62141 - ybtX 100.0 99.7 NP_405476 (ybtX) putative signal transducer [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00058 25032 25622 + ykgK/ecpR 100.0 97.0 NP_286011 (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
ID051II
Contig Start End Strand Gene Coverage Identity Accession Product
contig00299 3151 4002 + entB 99.3 82.5 NP_752613 (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00470 127 898 + fepC 94.6 80.0 NP_752606 (fepC) ferrienterobactin ABC transporter ATPase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00031 8550 9620 - ompA 100.0 83.8 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
contig00133 384 1137 - yagV/ecpE 99.7 84.1 NP_286006 (yagV/ecpE) E. coli common pilus chaperone EcpE [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00133 1063 2706 - yagW/ecpD 100.0 88.3 NP_286007 (yagW/ecpD) polymerized tip adhesin of ECP fibers [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00133 2696 5221 - yagX/ecpC 100.0 86.9 NP_286008 (yagX/ecpC) E. coli common pilus usher EcpC [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00133 5247 5915 - yagY/ecpB 100.0 87.7 NP_286009 (yagY/ecpB) E. coli common pilus chaperone EcpB [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00133 5977 6560 - yagZ/ecpA 99.3 90.2 NP_286010 (yagZ/ecpA) E. coli common pilus structural subunit EcpA [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00133 6634 7214 - ykgK/ecpR 98.3 86.9 NP_286011 (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
ID064
Contig Start End Strand Gene Coverage Identity Accession Product
contig00150 4866 5611 + entA 99.2 80.6 NP_752614 (entA) 23-dihydro-23-dihydroxybenzoate dehydrogenase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00150 4005 4856 + entB 99.2 82.3 NP_752613 (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00372 176 947 + fepC 94.6 81.2 NP_752606 (fepC) ferrienterobactin ABC transporter ATPase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00005 58780 59850 + ompA 100.0 83.8 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
contig00138 10567 11320 + yagV/ecpE 99.7 85.2 NP_286006 (yagV/ecpE) E. coli common pilus chaperone EcpE [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00138 8998 10641 + yagW/ecpD 100.0 88.2 NP_286007 (yagW/ecpD) polymerized tip adhesin of ECP fibers [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00138 6483 9008 + yagX/ecpC 100.0 87.3 NP_286008 (yagX/ecpC) E. coli common pilus usher EcpC [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00138 5789 6457 + yagY/ecpB 100.0 87.7 NP_286009 (yagY/ecpB) E. coli common pilus chaperone EcpB [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00138 5143 5726 + yagZ/ecpA 99.3 90.1 NP_286010 (yagZ/ecpA) E. coli common pilus structural subunit EcpA [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00138 4488 5068 + ykgK/ecpR 98.3 86.8 NP_286011 (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
ID100
Contig Start End Strand Gene Coverage Identity Accession Product
contig00694 597 1448 + entB 99.2 82.3 NP_752613 (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00026 10774 11844 + ompA 100.0 83.8 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
contig00320 3634 4387 + yagV/ecpE 99.7 85.4 NP_286006 (yagV/ecpE) E. coli common pilus chaperone EcpE [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00320 2065 3708 + yagW/ecpD 100.0 88.6 NP_286007 (yagW/ecpD) polymerized tip adhesin of ECP fibers [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00320 1 2075 + yagX/ecpC 82.1 87.8 NP_286008 (yagX/ecpC) E. coli common pilus usher EcpC [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00229 5202 5870 + yagY/ecpB 100.0 87.7 NP_286009 (yagY/ecpB) E. coli common pilus chaperone EcpB [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00229 4556 5139 + yagZ/ecpA 99.3 90.1 NP_286010 (yagZ/ecpA) E. coli common pilus structural subunit EcpA [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00229 3901 4481 + ykgK/ecpR 98.3 86.4 NP_286011 (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]


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Multi-Locus Sequence Typing (MLST)


Symbol Meaning
~ novel full length allele similar to match
? partial match to known allele
- allele missing


Scheme ST 1 2 3 4 5 6 7
ID014 kpneumoniae 297 gapA(31) infB(1) mdh(1) pgi(37) phoE(3) rpoB(27) tonB(64)
ID022 kpneumoniae - gapA(2) infB(1) mdh(~77) pgi(1) phoE(17) rpoB(4) tonB(42)
ID030I ecoli 1193 adk(14) fumC(14) gyrB(10) icd(200) mdh(17) purA(7) recA(10)
ID030II ecoli - adk(34) fumC(36) gyrB(39) icd(~87) mdh(67) purA(16) recA(4)
ID030III ecoli 46 adk(8) fumC(7) gyrB(1) icd(8) mdh(8) purA(8) recA(6)
ID042 ecoli 1193 adk(14) fumC(14) gyrB(10) icd(200) mdh(17) purA(7) recA(10)
ID049 ecoli 167 adk(10) fumC(11) gyrB(4) icd(8) mdh(8) purA(13) recA(2)
ID051II kpneumoniae 824 gapA(18) infB(22) mdh(18) pgi(22) phoE(79) rpoB(41) tonB(51)
ID064 kpneumoniae 188 gapA(3) infB(1) mdh(1) pgi(3) phoE(4) rpoB(28) tonB(39)
ID100 kpneumoniae 3586 gapA(2) infB(1) mdh(2) pgi(1) phoE(7) rpoB(195) tonB(7)

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Pangenome Analysis

Pangenome genes summary

Genes Description Number
Core genes (99% <= strains <= 100%) 338
Soft core genes (95% <= strains < 99%) 0
Shell genes (15% <= strains < 95%) 9648
Cloud genes (0% <= strains < 15%) 5423
Total genes (0% <= strains <= 100%) 15409

Schematic representation of genes presence (color) or absence (blank) between samples:


Pangenome tree based on presence/absence of accessory genes representation

Rectangular (phylogram)

Circular (phylogram)

Circular (cladogram)


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Pangenome tree based on core genome alignment representation

Rectangular (phylogram)

Circular (phylogram)

Circular (cladogram)


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Insertion sequence characterization


Field Description
Region Numeric code given to insertion sequence (IS)
Orientation The orientation of IS position: Either forward (F) or reverse (F)
X-cordinates The left coordinate of the position
Y-coordinates The right coordinate of the position
Gap The distance between the x and y coordinates
CallType Describes whether a position hit is novel (not in reference) or known (in the reference)
LeftGene Locus tag ID of the gene closest to the left side of the IS position
LeftGeneDescription Description of the gene feature from the left side of the IS position. By default this is the product position
RightGene Locus tag ID of the gene closest to the right side of the IS position
RightGeneDescription Description of the gene feature from the right side of the IS position. By default this is the product position


Select the sample

ID014
Region Orientation X-coordinates Y-coordinates Gap CallType LeftGene LeftGeneDescription RightGene RightGeneDescription
region_1 R 1541645 1541645 0 novel AC565_07505 transcriptional regulator AC565_07510 lysine/cadaverine antiporter
ID022
Region Orientation X-coordinates Y-coordinates Gap CallType LeftGene LeftGeneDescription RightGene RightGeneDescription
region_1 F 853523 853550 27 novel* AC565_04140 transposase AC565_04145 hypothetical protein
region_2 R 2739860 2739879 19 novel* AC565_13225 hypothetical protein AC565_13230 hypothetical protein
ID030III
Region Orientation X-coordinates Y-coordinates Gap CallType LeftGene LeftGeneDescription RightGene RightGeneDescription
region_1 R -1 3216702 3216703 novel AC565_27010 mannosyl-glycoprotein endo-beta-N-acetylglucosamidase AC565_15690 transposase
region_2 R -1 3219252 3219253 novel AC565_27010 mannosyl-glycoprotein endo-beta-N-acetylglucosamidase AC565_15705 transposase
ID030I
Region Orientation X-coordinates Y-coordinates Gap CallType LeftGene LeftGeneDescription RightGene RightGeneDescription
region_1 R -1 3216934 3216935 novel AC565_27010 mannosyl-glycoprotein endo-beta-N-acetylglucosamidase AC565_15690 transposase
ID042
Region Orientation X-coordinates Y-coordinates Gap CallType LeftGene LeftGeneDescription RightGene RightGeneDescription
region_1 R 241150 241721 571 novel* AC565_01180 transposase AC565_01180 transposase
region_2 R 2544441 2545085 644 novel* AC565_12285 transposase AC565_12285 transposase
region_3 F 3264947 3265503 556 novel* AC565_15950 transposase AC565_15950 transposase
ID100
Region Orientation X-coordinates Y-coordinates Gap CallType LeftGene LeftGeneDescription RightGene RightGeneDescription
region_1 R 867969 867978 -9 novel AC565_04215 Na+/xyloside symporter related transporter AC565_04215 Na+/xyloside symporter related transporter
region_2 F 2502295 2502304 -9 novel AC565_12125 transcriptional regulator AC565_12125 transcriptional regulator
region_3 F 3027875 3027884 -9 novel AC565_14720 glutathione ABC transporter ATP-binding protein AC565_14720 glutathione ABC transporter ATP-binding protein
region_4 R 4777150 4777242 92 novel* AC565_23395 ferrous iron transporter B AC565_23395 ferrous iron transporter B
region_5 F 5007941 5007946 5 novel AC565_24655 HdeB family protein AC565_24660 transcriptional regulator


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Citations and Bibliography

If you have used rMAP, please cite:

Sserwadda, I., & Mboowa, G. (2021). rMAP: the Rapid Microbial Analysis Pipeline for ESKAPE bacterial group whole-genome sequence data. Microbial genomics, 7(6), 10.1099/mgen.0.000583. https://doi.org/10.1099/mgen.0.000583


The philosophy of rMAP was built on the foundation of already pre-existing tools. As a token of gratitude to the authors of those numerous tools, please also cite:


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